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Conserved domains on  [gi|2130385964|gb|KAH7600806|]
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Early transcription elongation factor of RNA pol II, NGN section [[Candida] glabrata]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CTD smart01104
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription ...
 849-970 2.33e-37

Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription elongation factor protein Spt5 is necessary for binding to Spt4 to form the functional complex that regulates early transcription elongation by RNA polymerase II. The complex may be involved in pre-mRNA processing through its association with mRNA capping enzymes. This CTD domain carries a regular nonapeptide repeat that can be present in up to 18 copies, as in S. pombe. The repeat has a characteristic TPA motif.


:

Pssm-ID: 215026 [Multi-domain]  Cd Length: 121  Bit Score: 136.11  E-value: 2.33e-37
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964   849 GGMTPGWGAfDGGKTPAVNSHGAGTsgatsAWGGASTWGGQGAGGSSTWGGQGGATSTWGGQ----GATSTWGGASAWGN 924
Cdd:smart01104    1 GGRTPAWGA-SGSKTPAWGSRTPGT-----AAGGAPTARGGSGSRTPAWGGAGSRTPAWGGAgptgSRTPAWGGASAWGN 74

                            90       100       110       120
                    ....*....|....*....|....*....|....*....|....*..
gi 2130385964   925 KSSWGGASTWAA-SGEANGGVSTWGGGDRSTYGGASTWGNNATGGTS 970
Cdd:smart01104   75 KSSEGSASSWAAgPGGAYGAPTPGYGGTPSAYGPATPGGGAMAGSAS 121
NGN_Euk cd09888
Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW ...
 235-321 3.93e-30

Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1); The N-Utilization Substance G (NusG) protein and its eukaryotic homolog, Spt5, are involved in transcription elongation and termination. NusG contains an NGN domain at its N-terminus and Kyrpides Ouzounis and Woese (KOW) repeats at its C-terminus. Spt5 forms an Spt4-Spt5 complex that is an essential RNA polymerase II elongation factor. NusG was originally discovered as an N-dependent antitermination enhancing activity in Escherichia coli, and has a variety of functions such as its involvement in RNA polymerase elongation and Rho-termination in bacteria. Orthologs of the NusG gene exist in all bacteria, but their functions and requirements are different. Spt5-like is homologous to the Spt5 proteins present in all eukaryotes, which is unique as it encodes a protein with an additional long carboxy-terminal extension that contains WG/GW motifs. Spt5-like, or KTF1 (KOW domain-containing Transcription Factor 1), is a RNA-directed DNA methylation (RdDM) pathway effector in plants.


:

Pssm-ID: 193577 [Multi-domain]  Cd Length: 86  Bit Score: 114.16  E-value: 3.93e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  235 IWGVRCRPGKEKELVRKLLKKKFNLDRamGKRKLKILSIFQRDNYTGRIYIEAPKQSVIEKFCNGVPDIYISQKLLIPVQ 314
Cdd:cd09888      2 LWAVKCKPGKEREIVISLMRKFLDLQR--TGNPLGIKSVFARDGLKGYIYIEARKEAHVKDAIEGLRGVYLNTIKLVPIK 79


                   ....*..
gi 2130385964  315 ELPLLLK 321
Cdd:cd09888     80 EMPDVLS 86
Spt5_N pfam11942
Spt5 transcription elongation factor, acidic N-terminal; This is the very acidic N-terminal ...
 150-228 3.55e-23

Spt5 transcription elongation factor, acidic N-terminal; This is the very acidic N-terminal region of the early transcription elongation factor Spt5. The Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The actual function of this N-terminal domain is not known although it is dispensable for binding to Spt4.


:

Pssm-ID: 463406  Cd Length: 97  Bit Score: 94.64  E-value: 3.55e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2130385964  150 LVREGFITHGEDEDDEEGVagnRRGDRLHRQLDQDLNKSSEEDAQRLAKELRERYGRSSSKQYRAAAQDGyVPQRFLLP 228
Cdd:pfam11942   23 DGADDFIEDDEEDEDEEDG---RRDDRRHRELDRRRELEEDEDAEEIAEYLKERYGRSSSDAYRGDAEEG-VPQRLLLP 97
KOW_Spt5_5 cd06085
KOW domain of Spt5, repeat 5; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 744-795 4.49e-18

KOW domain of Spt5, repeat 5; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


:

Pssm-ID: 240509  Cd Length: 52  Bit Score: 78.68  E-value: 4.49e-18
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 2130385964  744 GREVALGKTVRVRSAGYKGQLGIVKDVNGDKATVELHSKNKHITIDKRKLTY 795
Cdd:cd06085      1 GRDPLIGKTVRIRKGPYKGYIGIVKDATGTTARVELHSKNKTITVDRSRLAV 52
KOW_Spt5_1 cd06081
KOW domain of Spt5, repeat 1; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 333-370 6.91e-16

KOW domain of Spt5, repeat 1; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


:

Pssm-ID: 240505  Cd Length: 38  Bit Score: 72.12  E-value: 6.91e-16
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 2130385964  333 GSYVRVKRGIYKGDLAMVDQISENNLEVMLKIVPRLDY 370
Cdd:cd06081      1 GSWVRIKRGIYKGDLAQVDEVDENGNRVVVKLIPRIDY 38
KOW_Spt5_3 cd06083
KOW domain of Spt5, repeat 3; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 532-582 3.56e-15

KOW domain of Spt5, repeat 3; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


:

Pssm-ID: 240507  Cd Length: 51  Bit Score: 70.25  E-value: 3.56e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 2130385964  532 IFEPGDHVMVINGEHQGDAGLVLTIKQGQVTFMSNQTREEVTITANNLSKS 582
Cdd:cd06083      1 HFKVGDHVKVISGRHEGETGLVVKVEDDVVTVFSDLTMRELKVFPRDLQLS 51
KOW_Spt5_2 cd06082
KOW domain of Spt5, repeat 2; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 482-531 1.52e-12

KOW domain of Spt5, repeat 2; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


:

Pssm-ID: 240506  Cd Length: 51  Bit Score: 62.90  E-value: 1.52e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 2130385964  482 FQPGDRVEILNGEQRGSRGIVAKSTTTIATVNLPEFPLK-PLEFPVSALRK 531
Cdd:cd06082      1 FQPGDNVEVIEGELKGLQGKVESVDGDIVTIMPKHEDLKePLEFPAKELRK 51
KOW_Spt5_4 cd06084
KOW domain of Spt5, repeat 4; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 660-697 1.72e-06

KOW domain of Spt5, repeat 4; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


:

Pssm-ID: 240508  Cd Length: 43  Bit Score: 45.59  E-value: 1.72e-06
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 2130385964  660 IVEKIGARREGQVLYIQSQQIFVVSKKIVENAGVFVVN 697
Cdd:cd06084      6 VVDGPYKGRQGTVLHIYRGTLFLHSREVTENGGIFVVR 43
 
Name Accession Description Interval E-value
CTD smart01104
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription ...
 849-970 2.33e-37

Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription elongation factor protein Spt5 is necessary for binding to Spt4 to form the functional complex that regulates early transcription elongation by RNA polymerase II. The complex may be involved in pre-mRNA processing through its association with mRNA capping enzymes. This CTD domain carries a regular nonapeptide repeat that can be present in up to 18 copies, as in S. pombe. The repeat has a characteristic TPA motif.


Pssm-ID: 215026 [Multi-domain]  Cd Length: 121  Bit Score: 136.11  E-value: 2.33e-37
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964   849 GGMTPGWGAfDGGKTPAVNSHGAGTsgatsAWGGASTWGGQGAGGSSTWGGQGGATSTWGGQ----GATSTWGGASAWGN 924
Cdd:smart01104    1 GGRTPAWGA-SGSKTPAWGSRTPGT-----AAGGAPTARGGSGSRTPAWGGAGSRTPAWGGAgptgSRTPAWGGASAWGN 74

                            90       100       110       120
                    ....*....|....*....|....*....|....*....|....*..
gi 2130385964   925 KSSWGGASTWAA-SGEANGGVSTWGGGDRSTYGGASTWGNNATGGTS 970
Cdd:smart01104   75 KSSEGSASSWAAgPGGAYGAPTPGYGGTPSAYGPATPGGGAMAGSAS 121
NGN_Euk cd09888
Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW ...
 235-321 3.93e-30

Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1); The N-Utilization Substance G (NusG) protein and its eukaryotic homolog, Spt5, are involved in transcription elongation and termination. NusG contains an NGN domain at its N-terminus and Kyrpides Ouzounis and Woese (KOW) repeats at its C-terminus. Spt5 forms an Spt4-Spt5 complex that is an essential RNA polymerase II elongation factor. NusG was originally discovered as an N-dependent antitermination enhancing activity in Escherichia coli, and has a variety of functions such as its involvement in RNA polymerase elongation and Rho-termination in bacteria. Orthologs of the NusG gene exist in all bacteria, but their functions and requirements are different. Spt5-like is homologous to the Spt5 proteins present in all eukaryotes, which is unique as it encodes a protein with an additional long carboxy-terminal extension that contains WG/GW motifs. Spt5-like, or KTF1 (KOW domain-containing Transcription Factor 1), is a RNA-directed DNA methylation (RdDM) pathway effector in plants.


Pssm-ID: 193577 [Multi-domain]  Cd Length: 86  Bit Score: 114.16  E-value: 3.93e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  235 IWGVRCRPGKEKELVRKLLKKKFNLDRamGKRKLKILSIFQRDNYTGRIYIEAPKQSVIEKFCNGVPDIYISQKLLIPVQ 314
Cdd:cd09888      2 LWAVKCKPGKEREIVISLMRKFLDLQR--TGNPLGIKSVFARDGLKGYIYIEARKEAHVKDAIEGLRGVYLNTIKLVPIK 79


                   ....*..
gi 2130385964  315 ELPLLLK 321
Cdd:cd09888     80 EMPDVLS 86
Spt5_N pfam11942
Spt5 transcription elongation factor, acidic N-terminal; This is the very acidic N-terminal ...
 150-228 3.55e-23

Spt5 transcription elongation factor, acidic N-terminal; This is the very acidic N-terminal region of the early transcription elongation factor Spt5. The Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The actual function of this N-terminal domain is not known although it is dispensable for binding to Spt4.


Pssm-ID: 463406  Cd Length: 97  Bit Score: 94.64  E-value: 3.55e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2130385964  150 LVREGFITHGEDEDDEEGVagnRRGDRLHRQLDQDLNKSSEEDAQRLAKELRERYGRSSSKQYRAAAQDGyVPQRFLLP 228
Cdd:pfam11942   23 DGADDFIEDDEEDEDEEDG---RRDDRRHRELDRRRELEEDEDAEEIAEYLKERYGRSSSDAYRGDAEEG-VPQRLLLP 97
Spt5-NGN pfam03439
Early transcription elongation factor of RNA pol II, NGN section; Spt5p and prokaryotic NusG ...
 235-320 8.49e-23

Early transcription elongation factor of RNA pol II, NGN section; Spt5p and prokaryotic NusG are shown to contain a novel 'NGN' domain. The combined NGN and KOW motif regions of Spt5 form the binding domain with Spt4. Spt5 complexes with Spt4 as a 1:1 heterodimer snf this Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The Schizosaccharomyces pombe core Spt5-Spt4 complex is a heterodimer bearing a trypsin-resistant Spt4-binding domain within the Spt5 subunit.


Pssm-ID: 397481  Cd Length: 84  Bit Score: 93.03  E-value: 8.49e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  235 IWGVRCRPGKEKELVRKLLKKKFNLDRamgKRKLKILSIFQRDNYTGRIYIEAPKQSVIEKFCNGVPDIYISQKLLIPVQ 314
Cdd:pfam03439    2 IWAVKCTPGQEREVALSLMRKILALAK---TNNLGIYSVFAPDGLKGYIYVEADRQAAVKRALEGIPNVRGLVPGLVPIK 78


                   ....*.
gi 2130385964  315 ELPLLL 320
Cdd:pfam03439   79 EMEHLL 84
KOW_Spt5_5 cd06085
KOW domain of Spt5, repeat 5; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 744-795 4.49e-18

KOW domain of Spt5, repeat 5; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


Pssm-ID: 240509  Cd Length: 52  Bit Score: 78.68  E-value: 4.49e-18
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 2130385964  744 GREVALGKTVRVRSAGYKGQLGIVKDVNGDKATVELHSKNKHITIDKRKLTY 795
Cdd:cd06085      1 GRDPLIGKTVRIRKGPYKGYIGIVKDATGTTARVELHSKNKTITVDRSRLAV 52
KOW_Spt5_1 cd06081
KOW domain of Spt5, repeat 1; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 333-370 6.91e-16

KOW domain of Spt5, repeat 1; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


Pssm-ID: 240505  Cd Length: 38  Bit Score: 72.12  E-value: 6.91e-16
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 2130385964  333 GSYVRVKRGIYKGDLAMVDQISENNLEVMLKIVPRLDY 370
Cdd:cd06081      1 GSWVRIKRGIYKGDLAQVDEVDENGNRVVVKLIPRIDY 38
KOW_Spt5_3 cd06083
KOW domain of Spt5, repeat 3; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 532-582 3.56e-15

KOW domain of Spt5, repeat 3; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


Pssm-ID: 240507  Cd Length: 51  Bit Score: 70.25  E-value: 3.56e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 2130385964  532 IFEPGDHVMVINGEHQGDAGLVLTIKQGQVTFMSNQTREEVTITANNLSKS 582
Cdd:cd06083      1 HFKVGDHVKVISGRHEGETGLVVKVEDDVVTVFSDLTMRELKVFPRDLQLS 51
CTD pfam12815
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription ...
 860-938 1.69e-13

Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription elongation factor protein Spt5 is necessary for binding to Spt4 to form the functional complex that regulates early transcription elongation by RNA polymerase II. The complex may be involved in pre-mRNA processing through its association with mRNA capping enzymes. This CTD domain carries a regular nonapeptide repeat that can be present in up to 18 copies, as in S. pombe. The repeat has a characteriztic TPA motif.


Pssm-ID: 372327 [Multi-domain]  Cd Length: 71  Bit Score: 66.31  E-value: 1.69e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  860 GGKTPAVNSHGagtSGATSAWGgastwggqgAGGSST--WGGQGGATSTWGGQGATSTWG--GASAWGNKSSWGGASTWA 935
Cdd:pfam12815    1 GSRTPAYNSAG---GSRTPAWG---------ADGSRTpaYGGAGGRTPAYNQGGKTPAWGgaGSRTPAYYGAWGGSRTPA 68


                   ...
gi 2130385964  936 ASG 938
Cdd:pfam12815   69 YGG 71
KOW_Spt5_2 cd06082
KOW domain of Spt5, repeat 2; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 482-531 1.52e-12

KOW domain of Spt5, repeat 2; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


Pssm-ID: 240506  Cd Length: 51  Bit Score: 62.90  E-value: 1.52e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 2130385964  482 FQPGDRVEILNGEQRGSRGIVAKSTTTIATVNLPEFPLK-PLEFPVSALRK 531
Cdd:cd06082      1 FQPGDNVEVIEGELKGLQGKVESVDGDIVTIMPKHEDLKePLEFPAKELRK 51
KOW_elon_Spt5 TIGR00405
transcription elongation factor Spt5; This protein contains a KOW domain, shared by bacterial ...
 236-365 3.16e-07

transcription elongation factor Spt5; This protein contains a KOW domain, shared by bacterial NusG and the uL24 (previously L24p/L26e) family of ribosomal proteins. The most recent papers and crystal structures make this a transcription elongation factor rather than a ribosomal protein.


Pssm-ID: 129499 [Multi-domain]  Cd Length: 145  Bit Score: 50.66  E-value: 3.16e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  236 WGVRCRPGKEKELVRKLlkkkfnlDRAMGKRKLKILSIFQRDNYTGRIYIEAPKQSVIEKFCNGVPDIYISQKLLIPVQE 315
Cdd:TIGR00405    1 FAVKTSVGQEKNVARLM-------ARKARKSGLEVYSILAPESLKGYILVEAETKIDMRNPIIGVPHVRGVVEGEIDFEE 73

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|
gi 2130385964  316 LPLLLKPSKSDDvALEEGSYVRVKRGIYKGDLAMVDQISENNLEVMLKIV 365
Cdd:TIGR00405   74 IERFLTPKKIIE-SIKKGDIVEIISGPFKGERAKVIRVDESKEEVTLELI 122
Chi1 COG3469
Chitinase [Carbohydrate transport and metabolism];
833-971 3.46e-07

Chitinase [Carbohydrate transport and metabolism];


Pssm-ID: 442692 [Multi-domain]  Cd Length: 534  Bit Score: 53.99  E-value: 3.46e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  833 ASGASGVVADNNGTLAGGMTPGWGAFDGGKTPAVNSHGAGTSGATSAWGGASTWGGQGAGGSSTWGGQGGATSTWGGQGA 912
Cdd:COG3469     23 LGAAATAASVTLTAATATTVVSTTGSVVVAASGSAGSGTGTTAASSTAATSSTTSTTATATAAAAAATSTSATLVATSTA 102

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2130385964  913 TSTWGGASAWGNKS----------SWGGASTWAASGEANGGVSTWGGGDRSTYGGASTWGNNATGGTST 971
Cdd:COG3469    103 SGANTGTSTVTTTStgagsvtsttSSTAGSTTTSGASATSSAGSTTTTTTVSGTETATGGTTTTSTTTT 171
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 235-322 6.09e-07

In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, this domain may confer affinity for Spt4p.Spt4p


Pssm-ID: 197850 [Multi-domain]  Cd Length: 106  Bit Score: 48.91  E-value: 6.09e-07
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964   235 IWGVRCRPGKEKELVRKLLKKKFNLDramgkRKLKILSIF-----------------QRDNYTGRIYIEAPKQSVIEKFC 297
Cdd:smart00738    2 WYAVRTTSGQEKRVAENLERKAEALG-----LEDKIVSILvpteevkeirrgkkkvvERKLFPGYIFVEADLEDEVWTAI 76

                            90       100       110
                    ....*....|....*....|....*....|
gi 2130385964   298 NGVPDIY-----ISQKLLIPVQELPLLLKP 322
Cdd:smart00738   77 RGTPGVRgfvggGGKPTPVPDDEIEKILKP 106
KOW_Spt5_4 cd06084
KOW domain of Spt5, repeat 4; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 660-697 1.72e-06

KOW domain of Spt5, repeat 4; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


Pssm-ID: 240508  Cd Length: 43  Bit Score: 45.59  E-value: 1.72e-06
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 2130385964  660 IVEKIGARREGQVLYIQSQQIFVVSKKIVENAGVFVVN 697
Cdd:cd06084      6 VVDGPYKGRQGTVLHIYRGTLFLHSREVTENGGIFVVR 43
nusG PRK08559
transcription antitermination protein NusG; Validated
 235-365 3.63e-06

transcription antitermination protein NusG; Validated


Pssm-ID: 181467 [Multi-domain]  Cd Length: 153  Bit Score: 47.94  E-value: 3.63e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  235 IWGVRCRPGKEKElVRKLLKKKFNldramgKRKLKILSIFQRDNYTGRIYIEAPKQSVIEKFCNGVPDIYISQKLLIPVQ 314
Cdd:PRK08559     8 IFAVKTTAGQERN-VALMLAMRAK------KENLPIYAILAPPELKGYVLVEAESKGAVEEAIRGIPHVRGVVPGEISFE 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 2130385964  315 ELPLLLKPsKSDDVALEEGSYVRVKRGIYKGDLAMVDQISENNLEVMLKIV 365
Cdd:PRK08559    81 EVEHFLKP-KPIVEGIKEGDIVELIAGPFKGEKARVVRVDESKEEVTVELL 130
dermokine cd21118
dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a ...
 800-1006 5.42e-05

dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a skin-specific glycoprotein that may play a regulatory role in the crosstalk between barrier dysfunction and inflammation, and therefore play a role in inflammatory diseases such as psoriasis. Dermokine is one of the most highly expressed proteins in differentiating keratinocytes, found mainly in the spinous and granular layers of the epidermis, but also in the epithelia of the small intestine, macrophages of the lung, and endothelial cells of the lung. Mouse dermokine has been reported to be encoded by 22 exons, and its expression leads to alpha, beta, and gamma transcripts.


Pssm-ID: 411053 [Multi-domain]  Cd Length: 495  Bit Score: 46.92  E-value: 5.42e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  800 GGEGITYDELVNRRGRLPQARmgpSYVSAPRHMASGASG-VVADNNGTLAGGMTPGWGAFDGGKTPAVNSHGAGTSGATS 878
Cdd:cd21118     99 GNEIGRQAEDIIRHGVDAVHN---SWQGSGGHGAYGSQGgPGVQGHGIPGGTGGPWASGGNYGTNSLGGSVGQGGNGGPL 175

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  879 AWG----GASTWGGQGAGGSSTW----------GGQGGATSTWGGQGATSTWGGASAWGNKSSWGGASTWAASGEANGGV 944
Cdd:cd21118    176 NYGtnsqGAVAQPGYGTVRGNNQnsgctnpppsGSHESFSNSGGSSSSGSSGSQGSHGSNGQGSSGSSGGQGNGGNNGSS 255

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2130385964  945 STWGGGDRSTYGGASTWGNNATGGTSTwggnnqeqnnggnrsawkdqGNKSNYGGGSSWGNQ 1006
Cdd:cd21118    256 SSNSGNSGGSNGGSSGNSGSGSGGSSS--------------------GGSNGWGGSSSSGGS 297
PRK13875 PRK13875
conjugal transfer protein TrbL; Provisional
 833-960 5.18e-04

conjugal transfer protein TrbL; Provisional


Pssm-ID: 237537  Cd Length: 440  Bit Score: 43.74  E-value: 5.18e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  833 ASGASGVVAdnnGTLAGGMTPGWGAFDGGKTpAVNSHGAGTSGATSAWGGASTWGGQGAGGSStwgGQGGATSTWGGQGA 912
Cdd:PRK13875   274 AVGTGLAAG---GAAVAAAAGAGLAAGGGAA-AAGGAAAAARGGAAAAGGASSAYSAGAAGGS---GAAGVAAGLGGVAR 346

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*...
gi 2130385964  913 TStwGGASAWGNKSSWGGASTWAASGEANGGVSTWGGGDRSTYGGAST 960
Cdd:PRK13875   347 AG--ASAAASPLRRAASRAAESMKSSFRAGARSTGGGAGGAAAAAAAG 392
KOW pfam00467
KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, ...
 750-780 5.47e-04

KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and NusG.


Pssm-ID: 425698 [Multi-domain]  Cd Length: 32  Bit Score: 38.14  E-value: 5.47e-04
                           10        20        30
                   ....*....|....*....|....*....|.
gi 2130385964  750 GKTVRVRSAGYKGQLGIVKDVNGDKATVELH 780
Cdd:pfam00467    2 GDVVRVIAGPFKGKVGKVVEVDDKKNRVLVE 32
ser_rich_anae_1 NF033849
serine-rich protein; This serine-rich protein belongs to a family with large size (over 1000 ...
 834-971 2.14e-03

serine-rich protein; This serine-rich protein belongs to a family with large size (over 1000 amino acids), which a highly serine-rich central region that averages over 300 aa in length. Species encoding members of this family of proteins tend to be anaerobic bacteria, including Gram-positive bacteria of the human gut microbiome and Chloroflexi from marine sediments.


Pssm-ID: 468206 [Multi-domain]  Cd Length: 1122  Bit Score: 42.30  E-value: 2.14e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  834 SGASGVVADNNGTlAGGMTPGWGAFDGGKTPAVNSHGAGTSGATSawGGASTWGGQGAGGSSTWGGQGG----------- 902
Cdd:NF033849   327 QSSSYNVSSGTGV-SSSHSDGTSQSTSISHSESSSESTGTSVGHS--TSSSVSSSESSSRSSSSGVSGGfsggiagggvt 403

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2130385964  903 ATSTWGGQGATSTWG-GASAWGNKSSWGGASTWAAS-GEANGGVSTWGGGDRSTYGGASTWGNNATGGTST 971
Cdd:NF033849   404 SEGLGASQGGSEGWGsGDSVQSVSQSYGSSSSTGTSsGHSDSSSHSTSSGQADSVSQGTSWSEGTGTSQGQ 474
 
Name Accession Description Interval E-value
CTD smart01104
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription ...
 849-970 2.33e-37

Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription elongation factor protein Spt5 is necessary for binding to Spt4 to form the functional complex that regulates early transcription elongation by RNA polymerase II. The complex may be involved in pre-mRNA processing through its association with mRNA capping enzymes. This CTD domain carries a regular nonapeptide repeat that can be present in up to 18 copies, as in S. pombe. The repeat has a characteristic TPA motif.


Pssm-ID: 215026 [Multi-domain]  Cd Length: 121  Bit Score: 136.11  E-value: 2.33e-37
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964   849 GGMTPGWGAfDGGKTPAVNSHGAGTsgatsAWGGASTWGGQGAGGSSTWGGQGGATSTWGGQ----GATSTWGGASAWGN 924
Cdd:smart01104    1 GGRTPAWGA-SGSKTPAWGSRTPGT-----AAGGAPTARGGSGSRTPAWGGAGSRTPAWGGAgptgSRTPAWGGASAWGN 74

                            90       100       110       120
                    ....*....|....*....|....*....|....*....|....*..
gi 2130385964   925 KSSWGGASTWAA-SGEANGGVSTWGGGDRSTYGGASTWGNNATGGTS 970
Cdd:smart01104   75 KSSEGSASSWAAgPGGAYGAPTPGYGGTPSAYGPATPGGGAMAGSAS 121
NGN_Euk cd09888
Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW ...
 235-321 3.93e-30

Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1); The N-Utilization Substance G (NusG) protein and its eukaryotic homolog, Spt5, are involved in transcription elongation and termination. NusG contains an NGN domain at its N-terminus and Kyrpides Ouzounis and Woese (KOW) repeats at its C-terminus. Spt5 forms an Spt4-Spt5 complex that is an essential RNA polymerase II elongation factor. NusG was originally discovered as an N-dependent antitermination enhancing activity in Escherichia coli, and has a variety of functions such as its involvement in RNA polymerase elongation and Rho-termination in bacteria. Orthologs of the NusG gene exist in all bacteria, but their functions and requirements are different. Spt5-like is homologous to the Spt5 proteins present in all eukaryotes, which is unique as it encodes a protein with an additional long carboxy-terminal extension that contains WG/GW motifs. Spt5-like, or KTF1 (KOW domain-containing Transcription Factor 1), is a RNA-directed DNA methylation (RdDM) pathway effector in plants.


Pssm-ID: 193577 [Multi-domain]  Cd Length: 86  Bit Score: 114.16  E-value: 3.93e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  235 IWGVRCRPGKEKELVRKLLKKKFNLDRamGKRKLKILSIFQRDNYTGRIYIEAPKQSVIEKFCNGVPDIYISQKLLIPVQ 314
Cdd:cd09888      2 LWAVKCKPGKEREIVISLMRKFLDLQR--TGNPLGIKSVFARDGLKGYIYIEARKEAHVKDAIEGLRGVYLNTIKLVPIK 79


                   ....*..
gi 2130385964  315 ELPLLLK 321
Cdd:cd09888     80 EMPDVLS 86
Spt5_N pfam11942
Spt5 transcription elongation factor, acidic N-terminal; This is the very acidic N-terminal ...
 150-228 3.55e-23

Spt5 transcription elongation factor, acidic N-terminal; This is the very acidic N-terminal region of the early transcription elongation factor Spt5. The Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The actual function of this N-terminal domain is not known although it is dispensable for binding to Spt4.


Pssm-ID: 463406  Cd Length: 97  Bit Score: 94.64  E-value: 3.55e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2130385964  150 LVREGFITHGEDEDDEEGVagnRRGDRLHRQLDQDLNKSSEEDAQRLAKELRERYGRSSSKQYRAAAQDGyVPQRFLLP 228
Cdd:pfam11942   23 DGADDFIEDDEEDEDEEDG---RRDDRRHRELDRRRELEEDEDAEEIAEYLKERYGRSSSDAYRGDAEEG-VPQRLLLP 97
Spt5-NGN pfam03439
Early transcription elongation factor of RNA pol II, NGN section; Spt5p and prokaryotic NusG ...
 235-320 8.49e-23

Early transcription elongation factor of RNA pol II, NGN section; Spt5p and prokaryotic NusG are shown to contain a novel 'NGN' domain. The combined NGN and KOW motif regions of Spt5 form the binding domain with Spt4. Spt5 complexes with Spt4 as a 1:1 heterodimer snf this Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The Schizosaccharomyces pombe core Spt5-Spt4 complex is a heterodimer bearing a trypsin-resistant Spt4-binding domain within the Spt5 subunit.


Pssm-ID: 397481  Cd Length: 84  Bit Score: 93.03  E-value: 8.49e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  235 IWGVRCRPGKEKELVRKLLKKKFNLDRamgKRKLKILSIFQRDNYTGRIYIEAPKQSVIEKFCNGVPDIYISQKLLIPVQ 314
Cdd:pfam03439    2 IWAVKCTPGQEREVALSLMRKILALAK---TNNLGIYSVFAPDGLKGYIYVEADRQAAVKRALEGIPNVRGLVPGLVPIK 78


                   ....*.
gi 2130385964  315 ELPLLL 320
Cdd:pfam03439   79 EMEHLL 84
KOW_Spt5_5 cd06085
KOW domain of Spt5, repeat 5; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 744-795 4.49e-18

KOW domain of Spt5, repeat 5; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


Pssm-ID: 240509  Cd Length: 52  Bit Score: 78.68  E-value: 4.49e-18
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 2130385964  744 GREVALGKTVRVRSAGYKGQLGIVKDVNGDKATVELHSKNKHITIDKRKLTY 795
Cdd:cd06085      1 GRDPLIGKTVRIRKGPYKGYIGIVKDATGTTARVELHSKNKTITVDRSRLAV 52
KOW_Spt5_1 cd06081
KOW domain of Spt5, repeat 1; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 333-370 6.91e-16

KOW domain of Spt5, repeat 1; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


Pssm-ID: 240505  Cd Length: 38  Bit Score: 72.12  E-value: 6.91e-16
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 2130385964  333 GSYVRVKRGIYKGDLAMVDQISENNLEVMLKIVPRLDY 370
Cdd:cd06081      1 GSWVRIKRGIYKGDLAQVDEVDENGNRVVVKLIPRIDY 38
KOW_Spt5_3 cd06083
KOW domain of Spt5, repeat 3; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 532-582 3.56e-15

KOW domain of Spt5, repeat 3; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


Pssm-ID: 240507  Cd Length: 51  Bit Score: 70.25  E-value: 3.56e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 2130385964  532 IFEPGDHVMVINGEHQGDAGLVLTIKQGQVTFMSNQTREEVTITANNLSKS 582
Cdd:cd06083      1 HFKVGDHVKVISGRHEGETGLVVKVEDDVVTVFSDLTMRELKVFPRDLQLS 51
CTD pfam12815
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription ...
 860-938 1.69e-13

Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription elongation factor protein Spt5 is necessary for binding to Spt4 to form the functional complex that regulates early transcription elongation by RNA polymerase II. The complex may be involved in pre-mRNA processing through its association with mRNA capping enzymes. This CTD domain carries a regular nonapeptide repeat that can be present in up to 18 copies, as in S. pombe. The repeat has a characteriztic TPA motif.


Pssm-ID: 372327 [Multi-domain]  Cd Length: 71  Bit Score: 66.31  E-value: 1.69e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  860 GGKTPAVNSHGagtSGATSAWGgastwggqgAGGSST--WGGQGGATSTWGGQGATSTWG--GASAWGNKSSWGGASTWA 935
Cdd:pfam12815    1 GSRTPAYNSAG---GSRTPAWG---------ADGSRTpaYGGAGGRTPAYNQGGKTPAWGgaGSRTPAYYGAWGGSRTPA 68


                   ...
gi 2130385964  936 ASG 938
Cdd:pfam12815   69 YGG 71
KOW_Spt5_2 cd06082
KOW domain of Spt5, repeat 2; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 482-531 1.52e-12

KOW domain of Spt5, repeat 2; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


Pssm-ID: 240506  Cd Length: 51  Bit Score: 62.90  E-value: 1.52e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 2130385964  482 FQPGDRVEILNGEQRGSRGIVAKSTTTIATVNLPEFPLK-PLEFPVSALRK 531
Cdd:cd06082      1 FQPGDNVEVIEGELKGLQGKVESVDGDIVTIMPKHEDLKePLEFPAKELRK 51
KOW_elon_Spt5 TIGR00405
transcription elongation factor Spt5; This protein contains a KOW domain, shared by bacterial ...
 236-365 3.16e-07

transcription elongation factor Spt5; This protein contains a KOW domain, shared by bacterial NusG and the uL24 (previously L24p/L26e) family of ribosomal proteins. The most recent papers and crystal structures make this a transcription elongation factor rather than a ribosomal protein.


Pssm-ID: 129499 [Multi-domain]  Cd Length: 145  Bit Score: 50.66  E-value: 3.16e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  236 WGVRCRPGKEKELVRKLlkkkfnlDRAMGKRKLKILSIFQRDNYTGRIYIEAPKQSVIEKFCNGVPDIYISQKLLIPVQE 315
Cdd:TIGR00405    1 FAVKTSVGQEKNVARLM-------ARKARKSGLEVYSILAPESLKGYILVEAETKIDMRNPIIGVPHVRGVVEGEIDFEE 73

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|
gi 2130385964  316 LPLLLKPSKSDDvALEEGSYVRVKRGIYKGDLAMVDQISENNLEVMLKIV 365
Cdd:TIGR00405   74 IERFLTPKKIIE-SIKKGDIVEIISGPFKGERAKVIRVDESKEEVTLELI 122
Chi1 COG3469
Chitinase [Carbohydrate transport and metabolism];
833-971 3.46e-07

Chitinase [Carbohydrate transport and metabolism];


Pssm-ID: 442692 [Multi-domain]  Cd Length: 534  Bit Score: 53.99  E-value: 3.46e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  833 ASGASGVVADNNGTLAGGMTPGWGAFDGGKTPAVNSHGAGTSGATSAWGGASTWGGQGAGGSSTWGGQGGATSTWGGQGA 912
Cdd:COG3469     23 LGAAATAASVTLTAATATTVVSTTGSVVVAASGSAGSGTGTTAASSTAATSSTTSTTATATAAAAAATSTSATLVATSTA 102

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2130385964  913 TSTWGGASAWGNKS----------SWGGASTWAASGEANGGVSTWGGGDRSTYGGASTWGNNATGGTST 971
Cdd:COG3469    103 SGANTGTSTVTTTStgagsvtsttSSTAGSTTTSGASATSSAGSTTTTTTVSGTETATGGTTTTSTTTT 171
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 235-322 6.09e-07

In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, this domain may confer affinity for Spt4p.Spt4p


Pssm-ID: 197850 [Multi-domain]  Cd Length: 106  Bit Score: 48.91  E-value: 6.09e-07
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964   235 IWGVRCRPGKEKELVRKLLKKKFNLDramgkRKLKILSIF-----------------QRDNYTGRIYIEAPKQSVIEKFC 297
Cdd:smart00738    2 WYAVRTTSGQEKRVAENLERKAEALG-----LEDKIVSILvpteevkeirrgkkkvvERKLFPGYIFVEADLEDEVWTAI 76

                            90       100       110
                    ....*....|....*....|....*....|
gi 2130385964   298 NGVPDIY-----ISQKLLIPVQELPLLLKP 322
Cdd:smart00738   77 RGTPGVRgfvggGGKPTPVPDDEIEKILKP 106
KOW_Spt5_4 cd06084
KOW domain of Spt5, repeat 4; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 660-697 1.72e-06

KOW domain of Spt5, repeat 4; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


Pssm-ID: 240508  Cd Length: 43  Bit Score: 45.59  E-value: 1.72e-06
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 2130385964  660 IVEKIGARREGQVLYIQSQQIFVVSKKIVENAGVFVVN 697
Cdd:cd06084      6 VVDGPYKGRQGTVLHIYRGTLFLHSREVTENGGIFVVR 43
nusG PRK08559
transcription antitermination protein NusG; Validated
 235-365 3.63e-06

transcription antitermination protein NusG; Validated


Pssm-ID: 181467 [Multi-domain]  Cd Length: 153  Bit Score: 47.94  E-value: 3.63e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  235 IWGVRCRPGKEKElVRKLLKKKFNldramgKRKLKILSIFQRDNYTGRIYIEAPKQSVIEKFCNGVPDIYISQKLLIPVQ 314
Cdd:PRK08559     8 IFAVKTTAGQERN-VALMLAMRAK------KENLPIYAILAPPELKGYVLVEAESKGAVEEAIRGIPHVRGVVPGEISFE 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 2130385964  315 ELPLLLKPsKSDDVALEEGSYVRVKRGIYKGDLAMVDQISENNLEVMLKIV 365
Cdd:PRK08559    81 EVEHFLKP-KPIVEGIKEGDIVELIAGPFKGEKARVVRVDESKEEVTVELL 130
dermokine cd21118
dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a ...
 800-1006 5.42e-05

dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a skin-specific glycoprotein that may play a regulatory role in the crosstalk between barrier dysfunction and inflammation, and therefore play a role in inflammatory diseases such as psoriasis. Dermokine is one of the most highly expressed proteins in differentiating keratinocytes, found mainly in the spinous and granular layers of the epidermis, but also in the epithelia of the small intestine, macrophages of the lung, and endothelial cells of the lung. Mouse dermokine has been reported to be encoded by 22 exons, and its expression leads to alpha, beta, and gamma transcripts.


Pssm-ID: 411053 [Multi-domain]  Cd Length: 495  Bit Score: 46.92  E-value: 5.42e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  800 GGEGITYDELVNRRGRLPQARmgpSYVSAPRHMASGASG-VVADNNGTLAGGMTPGWGAFDGGKTPAVNSHGAGTSGATS 878
Cdd:cd21118     99 GNEIGRQAEDIIRHGVDAVHN---SWQGSGGHGAYGSQGgPGVQGHGIPGGTGGPWASGGNYGTNSLGGSVGQGGNGGPL 175

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  879 AWG----GASTWGGQGAGGSSTW----------GGQGGATSTWGGQGATSTWGGASAWGNKSSWGGASTWAASGEANGGV 944
Cdd:cd21118    176 NYGtnsqGAVAQPGYGTVRGNNQnsgctnpppsGSHESFSNSGGSSSSGSSGSQGSHGSNGQGSSGSSGGQGNGGNNGSS 255

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2130385964  945 STWGGGDRSTYGGASTWGNNATGGTSTwggnnqeqnnggnrsawkdqGNKSNYGGGSSWGNQ 1006
Cdd:cd21118    256 SSNSGNSGGSNGGSSGNSGSGSGGSSS--------------------GGSNGWGGSSSSGGS 297
TrbL COG3846
Type IV secretory pathway, TrbL components [Intracellular trafficking, secretion, and ...
 844-971 7.45e-05

Type IV secretory pathway, TrbL components [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 443056 [Multi-domain]  Cd Length: 443  Bit Score: 46.47  E-value: 7.45e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  844 NGTLAGGMTPGWGAFDGGKTPAVNSHGAGTSGATSAWGGASTWGGQGA--GGSSTWGGQGGATSTwGGQGATSTWGGASA 921
Cdd:COG3846    260 AGLVSGGPQLGAGAAAGTGAAAGGAAVAAGAAAAAAAGGAAAAGGAAAarGGASAAGGAKAAYSL-GSAGSGSGAAGVAA 338

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|..
gi 2130385964  922 wgnkSSWGGASTWAASGEANGG--VSTWGGGDRSTYGGASTWGNNATGGTST 971
Cdd:COG3846    339 ----GMGGVGRAGGSAAASPAGkaAFAQAAGFADSYRAGSRAAWAATGGAAA 386
dermokine cd21118
dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a ...
 834-946 1.14e-04

dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a skin-specific glycoprotein that may play a regulatory role in the crosstalk between barrier dysfunction and inflammation, and therefore play a role in inflammatory diseases such as psoriasis. Dermokine is one of the most highly expressed proteins in differentiating keratinocytes, found mainly in the spinous and granular layers of the epidermis, but also in the epithelia of the small intestine, macrophages of the lung, and endothelial cells of the lung. Mouse dermokine has been reported to be encoded by 22 exons, and its expression leads to alpha, beta, and gamma transcripts.


Pssm-ID: 411053 [Multi-domain]  Cd Length: 495  Bit Score: 45.76  E-value: 1.14e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  834 SGASGVVADNNGTLAGGMTPGWGAFDGGKTPAVNSHGAGTSGATSAWGGASTWGGQGAGGSST---WGGQGGATSTWGGQ 910
Cdd:cd21118    242 SSGGQGNGGNNGSSSSNSGNSGGSNGGSSGNSGSGSGGSSSGGSNGWGGSSSSGGSGGSGGGNkpeCNNPGNDVRMAGGG 321

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 2130385964  911 GATSTWGGASAWGNKSSWGGAstwaasgEANGGVST 946
Cdd:cd21118    322 GSQGSKESSGSHGSNGGNGQA-------EAVGGLNT 350
dermokine cd21118
dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a ...
 834-968 2.36e-04

dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a skin-specific glycoprotein that may play a regulatory role in the crosstalk between barrier dysfunction and inflammation, and therefore play a role in inflammatory diseases such as psoriasis. Dermokine is one of the most highly expressed proteins in differentiating keratinocytes, found mainly in the spinous and granular layers of the epidermis, but also in the epithelia of the small intestine, macrophages of the lung, and endothelial cells of the lung. Mouse dermokine has been reported to be encoded by 22 exons, and its expression leads to alpha, beta, and gamma transcripts.


Pssm-ID: 411053 [Multi-domain]  Cd Length: 495  Bit Score: 44.99  E-value: 2.36e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  834 SGASGVVADNNGTLAGGMTPGWGAFdgGKTPAVNSHGAGTSGATSAWGGASTWGGQGAGGSSTWGGQGGATSTWGGQGAT 913
Cdd:cd21118    208 SGSHESFSNSGGSSSSGSSGSQGSH--GSNGQGSSGSSGGQGNGGNNGSSSSNSGNSGGSNGGSSGNSGSGSGGSSSGGS 285

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 2130385964  914 STWGGASAWGNKSSWGGASTWAASGEANGGVSTWGGGDRSTYGGASTWGNNATGG 968
Cdd:cd21118    286 NGWGGSSSSGGSGGSGGGNKPECNNPGNDVRMAGGGGSQGSKESSGSHGSNGGNG 340
AidA COG3468
Autotransporter adhesin AidA [Cell wall/membrane/envelope biogenesis, Intracellular ...
 834-971 3.32e-04

Autotransporter adhesin AidA [Cell wall/membrane/envelope biogenesis, Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442691 [Multi-domain]  Cd Length: 846  Bit Score: 44.55  E-value: 3.32e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  834 SGASGVVADNNGTLAGGMTPGWGAFDGGKTPAVNSHGAGTSGATSAWGGASTWGGQGAGGSSTWGGQGGATSTWGGQGAT 913
Cdd:COG3468    287 GGGGASGTGGGGTASTGGGGGGGGGNGGGGGGGSNAGGGSGGGGGGGGGGGGGGTTLNGAGSAGGGTGAALAGTGGSGSG 366

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 2130385964  914 STWGGASAWGNKSSWGGASTWAASGEANGGVSTWGGGDRSTYGGASTWGNNATGGTST 971
Cdd:COG3468    367 GGGGGGSGGGGGAGGGGANTGSDGVGTGLTTGGTGNNGGGGVGGGGGGGLTLTGGTLT 424
PRK13875 PRK13875
conjugal transfer protein TrbL; Provisional
 833-960 5.18e-04

conjugal transfer protein TrbL; Provisional


Pssm-ID: 237537  Cd Length: 440  Bit Score: 43.74  E-value: 5.18e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  833 ASGASGVVAdnnGTLAGGMTPGWGAFDGGKTpAVNSHGAGTSGATSAWGGASTWGGQGAGGSStwgGQGGATSTWGGQGA 912
Cdd:PRK13875   274 AVGTGLAAG---GAAVAAAAGAGLAAGGGAA-AAGGAAAAARGGAAAAGGASSAYSAGAAGGS---GAAGVAAGLGGVAR 346

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*...
gi 2130385964  913 TStwGGASAWGNKSSWGGASTWAASGEANGGVSTWGGGDRSTYGGAST 960
Cdd:PRK13875   347 AG--ASAAASPLRRAASRAAESMKSSFRAGARSTGGGAGGAAAAAAAG 392
KOW pfam00467
KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, ...
 750-780 5.47e-04

KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and NusG.


Pssm-ID: 425698 [Multi-domain]  Cd Length: 32  Bit Score: 38.14  E-value: 5.47e-04
                           10        20        30
                   ....*....|....*....|....*....|.
gi 2130385964  750 GKTVRVRSAGYKGQLGIVKDVNGDKATVELH 780
Cdd:pfam00467    2 GDVVRVIAGPFKGKVGKVVEVDDKKNRVLVE 32
PTZ00473 PTZ00473
Plasmodium Vir superfamily; Provisional
 850-964 1.06e-03

Plasmodium Vir superfamily; Provisional


Pssm-ID: 240430 [Multi-domain]  Cd Length: 420  Bit Score: 42.53  E-value: 1.06e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  850 GMTPGWGAFDGGKTPAVNSHGAGTSGATSAWGGASTWGGQGAGGSSTWGGQGGATSTWGG-QGATSTWGGASAWGNKSSW 928
Cdd:PTZ00473   309 NMGHDSRGPYNANYGGQFNSRSGRTGSSESIRGFTYDSSTTYGGSSYGTSQTDSTSTYGSrSTFDSSTGGGSQSGGGSTY 388

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 2130385964  929 GGASTWAASGEanGGVSTWGGgdrSTYGGASTWGNN 964
Cdd:PTZ00473   389 GGSSTFDGSSR--GSSDSFGV---SYFGPQQTVGFS 419
dermokine cd21118
dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a ...
 833-1005 1.08e-03

dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a skin-specific glycoprotein that may play a regulatory role in the crosstalk between barrier dysfunction and inflammation, and therefore play a role in inflammatory diseases such as psoriasis. Dermokine is one of the most highly expressed proteins in differentiating keratinocytes, found mainly in the spinous and granular layers of the epidermis, but also in the epithelia of the small intestine, macrophages of the lung, and endothelial cells of the lung. Mouse dermokine has been reported to be encoded by 22 exons, and its expression leads to alpha, beta, and gamma transcripts.


Pssm-ID: 411053 [Multi-domain]  Cd Length: 495  Bit Score: 42.68  E-value: 1.08e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  833 ASGASGVVADNNGTLAGGMTPGWGAFDGGKtpavNShGAGTSGATSAWGGASTWGGQGAGGSSTWGGQGGatSTWGGQGA 912
Cdd:cd21118    186 AQPGYGTVRGNNQNSGCTNPPPSGSHESFS----NS-GGSSSSGSSGSQGSHGSNGQGSSGSSGGQGNGG--NNGSSSSN 258

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  913 TSTWGGASAwGNKSSWGGASTWAASGEANGGVSTWGGGDRSTYGGAS--TWGNNATGGTStwggnnqEQNNGGNRSAWKD 990
Cdd:cd21118    259 SGNSGGSNG-GSSGNSGSGSGGSSSGGSNGWGGSSSSGGSGGSGGGNkpECNNPGNDVRM-------AGGGGSQGSKESS 330

                          170
                   ....*....|....*
gi 2130385964  991 QGNKSNYGGGSSWGN 1005
Cdd:cd21118    331 GSHGSNGGNGQAEAV 345
III PHA00370
attachment protein
 836-921 1.42e-03

attachment protein


Pssm-ID: 164795 [Multi-domain]  Cd Length: 297  Bit Score: 41.83  E-value: 1.42e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  836 ASGV-VADNNGTL-AGGMTPGWGAFDGGKTPAVNSHGAGTSGATsawGGASTWGGQGAGGS--STWGGQGGATSTWGGQG 911
Cdd:PHA00370    57 ATGVtVCQNDGTVcNGSWKPTGSADKDGDGGGTGEGGSDTGGDT---GGGNTGGGSGGGDTggSGGGGSDGGGSEGGSTG 133

                           90
                   ....*....|
gi 2130385964  912 ATSTWGGASA 921
Cdd:PHA00370   134 KSLTKEGVGA 143
ser_rich_anae_1 NF033849
serine-rich protein; This serine-rich protein belongs to a family with large size (over 1000 ...
 834-971 2.14e-03

serine-rich protein; This serine-rich protein belongs to a family with large size (over 1000 amino acids), which a highly serine-rich central region that averages over 300 aa in length. Species encoding members of this family of proteins tend to be anaerobic bacteria, including Gram-positive bacteria of the human gut microbiome and Chloroflexi from marine sediments.


Pssm-ID: 468206 [Multi-domain]  Cd Length: 1122  Bit Score: 42.30  E-value: 2.14e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  834 SGASGVVADNNGTlAGGMTPGWGAFDGGKTPAVNSHGAGTSGATSawGGASTWGGQGAGGSSTWGGQGG----------- 902
Cdd:NF033849   327 QSSSYNVSSGTGV-SSSHSDGTSQSTSISHSESSSESTGTSVGHS--TSSSVSSSESSSRSSSSGVSGGfsggiagggvt 403

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2130385964  903 ATSTWGGQGATSTWG-GASAWGNKSSWGGASTWAAS-GEANGGVSTWGGGDRSTYGGASTWGNNATGGTST 971
Cdd:NF033849   404 SEGLGASQGGSEGWGsGDSVQSVSQSYGSSSSTGTSsGHSDSSSHSTSSGQADSVSQGTSWSEGTGTSQGQ 474
PTZ00473 PTZ00473
Plasmodium Vir superfamily; Provisional
 845-948 2.53e-03

Plasmodium Vir superfamily; Provisional


Pssm-ID: 240430 [Multi-domain]  Cd Length: 420  Bit Score: 41.37  E-value: 2.53e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  845 GTLAGGMTPGWGAFDGGKTPAVNSHGAGTSGATSAWGGASTWGGQGAGGSSTWGGQG-GATSTWGGQ-GATSTWGGASAW 922
Cdd:PTZ00473   309 NMGHDSRGPYNANYGGQFNSRSGRTGSSESIRGFTYDSSTTYGGSSYGTSQTDSTSTyGSRSTFDSStGGGSQSGGGSTY 388

                           90       100
                   ....*....|....*....|....*.
gi 2130385964  923 GNKSSWGGASTwaaSGEANGGVSTWG 948
Cdd:PTZ00473   389 GGSSTFDGSSR---GSSDSFGVSYFG 411
Gly_rich pfam12810
Glycine rich protein; This family of proteins is greatly expanded in Trichomonas vaginalis. ...
 845-1003 2.57e-03

Glycine rich protein; This family of proteins is greatly expanded in Trichomonas vaginalis. The proteins are composed of several glycine rich motifs interspersed through the sequence. Although many proteins have been annotated by similarity in the family these annotations given the biased composition of the sequences these are unlikely to be functionally relevant.


Pssm-ID: 403882 [Multi-domain]  Cd Length: 257  Bit Score: 40.72  E-value: 2.57e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  845 GTLAGGMTPGWGAFDGGKTPAVNSHGAGTSG--ATSAW----------------GGASTWGGQ--GAGGSSTwGGQGGAT 904
Cdd:pfam12810   57 GEYNNSTNMNPGGFNGGGNYKGSSGDGSGGGggATDIRfdenslksriivagggGGSGEGDDGsgGYGGGLT-GGGGGSG 135

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  905 STWGGQGATSTWGGASAWGNKSS--WGGASTWAASGEANGGvstwGGGdrsTYGGASTwGNNATGGtstwggnnqeqnng 982
Cdd:pfam12810  136 CYEGSYGATQTSGGIGGYGINGSfgQGGNGRNSGGGGGGGG----GGG---YYGGFGG-GSYGGGG-------------- 193

                          170       180
                   ....*....|....*....|.
gi 2130385964  983 gnrsawkdqgnksnyGGGSSW 1003
Cdd:pfam12810  194 ---------------GGGSSY 199
PRK13875 PRK13875
conjugal transfer protein TrbL; Provisional
 870-972 2.64e-03

conjugal transfer protein TrbL; Provisional


Pssm-ID: 237537  Cd Length: 440  Bit Score: 41.43  E-value: 2.64e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  870 GAGTS-GATSAWGGASTWGGQGAGGSSTWGGQGGATSTWGGQGATSTWGGA-SAWGNKSSWGGASTWAASGEanGGVSTW 947
Cdd:PRK13875   270 GAGAAvGTGLAAGGAAVAAAAGAGLAAGGGAAAAGGAAAAARGGAAAAGGAsSAYSAGAAGGSGAAGVAAGL--GGVARA 347

                           90       100       110
                   ....*....|....*....|....*....|..
gi 2130385964  948 GGG-------DRSTYGGASTWGNNATGGTSTW 972
Cdd:PRK13875   348 GASaaasplrRAASRAAESMKSSFRAGARSTG 379
TrbL COG3846
Type IV secretory pathway, TrbL components [Intracellular trafficking, secretion, and ...
 832-947 3.01e-03

Type IV secretory pathway, TrbL components [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 443056 [Multi-domain]  Cd Length: 443  Bit Score: 41.08  E-value: 3.01e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  832 MASGASGVVADNNGTLAGGM-TPGWGAFDGGKTPAVNSHGAGTSGATSAWGGASTWGGQGAGGSSTWGGQG-GATSTWGG 909
Cdd:COG3846    286 VAAGAAAAAAAGGAAAAGGAaAARGGASAAGGAKAAYSLGSAGSGSGAAGVAAGMGGVGRAGGSAAASPAGkAAFAQAAG 365

                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 2130385964  910 QGATSTWGGASAWGN-KSSWGGASTWAASGEANGGVSTW 947
Cdd:COG3846    366 FADSYRAGSRAAWAAtGGAAARGAGLTASAPAKGGAPAW 404
dermokine cd21118
dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a ...
 834-971 5.09e-03

dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a skin-specific glycoprotein that may play a regulatory role in the crosstalk between barrier dysfunction and inflammation, and therefore play a role in inflammatory diseases such as psoriasis. Dermokine is one of the most highly expressed proteins in differentiating keratinocytes, found mainly in the spinous and granular layers of the epidermis, but also in the epithelia of the small intestine, macrophages of the lung, and endothelial cells of the lung. Mouse dermokine has been reported to be encoded by 22 exons, and its expression leads to alpha, beta, and gamma transcripts.


Pssm-ID: 411053 [Multi-domain]  Cd Length: 495  Bit Score: 40.75  E-value: 5.09e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  834 SGASGVVADNNGTLAGGMTPGWGAFDGGKTPAVNSHGaGTSGATSawGGASTWGGQGAGGSSTWGGQGGATSTWGGQGAT 913
Cdd:cd21118    223 SGSSGSQGSHGSNGQGSSGSSGGQGNGGNNGSSSSNS-GNSGGSN--GGSSGNSGSGSGGSSSGGSNGWGGSSSSGGSGG 299

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 2130385964  914 STWGGASAWGNKSSWGGAstwAASGEANGgvSTWGGGDRSTYGGAStwGNNATGGTST 971
Cdd:cd21118    300 SGGGNKPECNNPGNDVRM---AGGGGSQG--SKESSGSHGSNGGNG--QAEAVGGLNT 350
PRK13875 PRK13875
conjugal transfer protein TrbL; Provisional
 844-971 8.60e-03

conjugal transfer protein TrbL; Provisional


Pssm-ID: 237537  Cd Length: 440  Bit Score: 39.89  E-value: 8.60e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  844 NGTLAGGMTPGWGAFDGGKTPAVNSHGAGTSGATSAW-GGASTWGGQGAGGSSTWGGQGGATSTW--GGQGATSTWGGAS 920
Cdd:PRK13875   260 NGLVSGAPQLGAGAAVGTGLAAGGAAVAAAAGAGLAAgGGAAAAGGAAAAARGGAAAAGGASSAYsaGAAGGSGAAGVAA 339

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 2130385964  921 AWGNKSSWGGAST-----WAASGEANGGVSTWGGGDRSTYGGASTWGNNATGGTST 971
Cdd:PRK13875   340 GLGGVARAGASAAasplrRAASRAAESMKSSFRAGARSTGGGAGGAAAAAAAGAAA 395
COG4625 COG4625
Uncharacterized conserved protein, contains a C-terminal beta-barrel porin domain [Function ...
 833-971 9.04e-03

Uncharacterized conserved protein, contains a C-terminal beta-barrel porin domain [Function unknown];


Pssm-ID: 443664 [Multi-domain]  Cd Length: 900  Bit Score: 40.15  E-value: 9.04e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2130385964  833 ASGASGVVADNNGTLAGGMTPGWGAFDGGKTPAVNSHGAGTSGATSAWGGASTWGGQGAGGSSTWGGQGGATSTWGGQGA 912
Cdd:COG4625    345 AGGGGAGGGGAGGGGGGGTGGGGGGGGGGGGGSGGGGAGGGGGSGGGGGGGAGGGGGGGGAGGTGGGGAGGGGGAAGGGG 424

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2130385964  913 TSTWGGASAWGNKSSWGGASTWAASGEANGGVSTWGGGDRSTYGGASTWG-------NNATGGTST 971
Cdd:COG4625    425 GGTGAGGGGGGGGTGAGGGGATGGGGGGGGGAGGSGGGAGAGGGSGSGAGtltltgnNTYTGTTTV 490
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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