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Conserved domains on  [gi|1834199525|ref|NP_001369143|]
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zinc finger CCCH domain-containing protein 13 isoform 6 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK12678 super family cl36163
transcription termination factor Rho; Provisional
 176-399 9.18e-08

transcription termination factor Rho; Provisional


The actual alignment was detected with superfamily member PRK12678:

Pssm-ID: 237171 [Multi-domain]  Cd Length: 672  Bit Score: 56.84  E-value: 9.18e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  176 QRHSPSPRRKRTPSPSYQRTLTPPLRRSASPYPSHSLSSP-QRKQSPPRHRSPMREKGRHDHERTSQSHDRRHERREDTR 254
Cdd:PRK12678    59 RGGGAAAAAATPAAPAAAARRAARAAAAARQAEQPAAEAAaAKAEAAPAARAAAAAAAEAASAPEAAQARERRERGEAAR 138

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  255 GKRDREKDSREEREYEQDQSSSRDHRDDREPRDGRDRRDARDTRDRRELRDSRDMRDSREmrdySRDTKESRDPRDSRST 334
Cdd:PRK12678   139 RGAARKAGEGGEQPATEARADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGR----DGDDRDRRDRREQGDR 214

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1834199525  335 RDAHDYRDREGRDTHRKEDTYPEESRSYGRNHLREESSRTEIRNESRNESRSEIRNDRMGRSRGR 399
Cdd:PRK12678   215 REERGRRDGGDRRGRRRRRDRRDARGDDNREDRGDRDGDDGEGRGGRRGRRFRDRDRRGRRGGDG 279
 
Name Accession Description Interval E-value
PRK12678 PRK12678
transcription termination factor Rho; Provisional
 176-399 9.18e-08

transcription termination factor Rho; Provisional


Pssm-ID: 237171 [Multi-domain]  Cd Length: 672  Bit Score: 56.84  E-value: 9.18e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  176 QRHSPSPRRKRTPSPSYQRTLTPPLRRSASPYPSHSLSSP-QRKQSPPRHRSPMREKGRHDHERTSQSHDRRHERREDTR 254
Cdd:PRK12678    59 RGGGAAAAAATPAAPAAAARRAARAAAAARQAEQPAAEAAaAKAEAAPAARAAAAAAAEAASAPEAAQARERRERGEAAR 138

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  255 GKRDREKDSREEREYEQDQSSSRDHRDDREPRDGRDRRDARDTRDRRELRDSRDMRDSREmrdySRDTKESRDPRDSRST 334
Cdd:PRK12678   139 RGAARKAGEGGEQPATEARADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGR----DGDDRDRRDRREQGDR 214

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1834199525  335 RDAHDYRDREGRDTHRKEDTYPEESRSYGRNHLREESSRTEIRNESRNESRSEIRNDRMGRSRGR 399
Cdd:PRK12678   215 REERGRRDGGDRRGRRRRRDRRDARGDDNREDRGDRDGDDGEGRGGRRGRRFRDRDRRGRRGGDG 279
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 303-406 3.69e-04

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 44.91  E-value: 3.69e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  303 LRDSRDMRDSREMRDYSRDTKESRDpRDSRSTRDAHDYRDREgRDTHRKEDTYPEESRSYGRNHLREESSRTEIRNESRN 382
Cdd:TIGR01622   10 LRDSSSAGDRDRRRDKGRERSRDRS-RDRERSRSRRRDRHRD-RDYYRGRERRSRSRRPNRRYRPREKRRRRGDSYRRRR 87

                           90       100
                   ....*....|....*....|....
gi 1834199525  383 ESRSEIRNDRMGRSRGRVPELPEK 406
Cdd:TIGR01622   88 DDRRSRREKPRARDGTPEPLTEDE 111
 
Name Accession Description Interval E-value
PRK12678 PRK12678
transcription termination factor Rho; Provisional
 176-399 9.18e-08

transcription termination factor Rho; Provisional


Pssm-ID: 237171 [Multi-domain]  Cd Length: 672  Bit Score: 56.84  E-value: 9.18e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  176 QRHSPSPRRKRTPSPSYQRTLTPPLRRSASPYPSHSLSSP-QRKQSPPRHRSPMREKGRHDHERTSQSHDRRHERREDTR 254
Cdd:PRK12678    59 RGGGAAAAAATPAAPAAAARRAARAAAAARQAEQPAAEAAaAKAEAAPAARAAAAAAAEAASAPEAAQARERRERGEAAR 138

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  255 GKRDREKDSREEREYEQDQSSSRDHRDDREPRDGRDRRDARDTRDRRELRDSRDMRDSREmrdySRDTKESRDPRDSRST 334
Cdd:PRK12678   139 RGAARKAGEGGEQPATEARADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGR----DGDDRDRRDRREQGDR 214

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1834199525  335 RDAHDYRDREGRDTHRKEDTYPEESRSYGRNHLREESSRTEIRNESRNESRSEIRNDRMGRSRGR 399
Cdd:PRK12678   215 REERGRRDGGDRRGRRRRRDRRDARGDDNREDRGDRDGDDGEGRGGRRGRRFRDRDRRGRRGGDG 279
PRK12678 PRK12678
transcription termination factor Rho; Provisional
 177-391 5.34e-06

transcription termination factor Rho; Provisional


Pssm-ID: 237171 [Multi-domain]  Cd Length: 672  Bit Score: 51.06  E-value: 5.34e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  177 RHSPSPRRKRTPSPSYQRTLTPPLRRSASPYPSHSLSSPQRKQSPPRHRSPMREKGRHDHERTSQSHDRRHERRED--TR 254
Cdd:PRK12678    76 AARRAARAAAAARQAEQPAAEAAAAKAEAAPAARAAAAAAAEAASAPEAAQARERRERGEAARRGAARKAGEGGEQpaTE 155

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  255 GKRDREKDSREEREYEQDQSSSRDHRDDREPRDGRDRRDARDTRDRRELRDSRDMRDSREMRDYSRDTKESRDPRDSRST 334
Cdd:PRK12678   156 ARADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGRDGDDRDRRDRREQGDRREERGRRDGGDRRGRRRRRDR 235

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1834199525  335 RDAHDYRDREGRDTHRKEDTYPEESRSYGRNHLREESSRTeiRNESRNESRSEIRND 391
Cdd:PRK12678   236 RDARGDDNREDRGDRDGDDGEGRGGRRGRRFRDRDRRGRR--GGDGGNEREPELRED 290
PRK12678 PRK12678
transcription termination factor Rho; Provisional
 124-353 7.73e-05

transcription termination factor Rho; Provisional


Pssm-ID: 237171 [Multi-domain]  Cd Length: 672  Bit Score: 47.21  E-value: 7.73e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  124 EEKTRDGKDRGRDFERQREKRDKPRSTSPAGQHHSPISSRHHSSSSQSGSSIQRHSPSPRRKRTPSPSYQRTLTPPLRRS 203
Cdd:PRK12678    70 PAAPAAAARRAARAAAAARQAEQPAAEAAAAKAEAAPAARAAAAAAAEAASAPEAAQARERRERGEAARRGAARKAGEGG 149

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  204 ASPYPSHSLSSPQRKQSPPRHRSPMREKGRHDHERTSQSHDRRHERREDTRGKRDREKDSREEREYEQDQSSSRDHRDDR 283
Cdd:PRK12678   150 EQPATEARADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGRDGDDRDRRDRREQGDRREERGRRDGGDRRGR 229

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  284 EPRDGRDRRDARDTRDRRELRDSRDMRDSREmrdysRDTKESRDPRDSRSTRDahdyRDREGRDTHRKED 353
Cdd:PRK12678   230 RRRRDRRDARGDDNREDRGDRDGDDGEGRGG-----RRGRRFRDRDRRGRRGG----DGGNEREPELRED 290
PRK12678 PRK12678
transcription termination factor Rho; Provisional
 203-413 2.68e-04

transcription termination factor Rho; Provisional


Pssm-ID: 237171 [Multi-domain]  Cd Length: 672  Bit Score: 45.67  E-value: 2.68e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  203 SASPYPSHSLSSPQRKQSPPRHRSPMREKGRHDHERTSQSHDRRHERREDTRGKRDREKDSREEREYEQDQSSSRdhrdd 282
Cdd:PRK12678    62 GAAAAAATPAAPAAAARRAARAAAAARQAEQPAAEAAAAKAEAAPAARAAAAAAAEAASAPEAAQARERRERGEA----- 136

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  283 rEPRDGRDRRDARDTRDRRELRDSRDMRDSREMRDySRDTKESRDPRDSRSTRDAHDYRDREGRDTHRKEDTYP-EESRS 361
Cdd:PRK12678   137 -ARRGAARKAGEGGEQPATEARADAAERTEEEERD-ERRRRGDREDRQAEAERGERGRREERGRDGDDRDRRDRrEQGDR 214

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|..
gi 1834199525  362 YGRNHLREESSRTEIRNESRNESRSEIRNDRMGRSRGRVPELPEKGSRGSRG 413
Cdd:PRK12678   215 REERGRRDGGDRRGRRRRRDRRDARGDDNREDRGDRDGDDGEGRGGRRGRRF 266
PRK12678 PRK12678
transcription termination factor Rho; Provisional
 148-353 3.45e-04

transcription termination factor Rho; Provisional


Pssm-ID: 237171 [Multi-domain]  Cd Length: 672  Bit Score: 45.28  E-value: 3.45e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  148 RSTSPAGQHHSPISSRHHSSSSQSGSSIQRHSPSPRRKRTPSPSYQRTLTPPLRRSASPYPSHSLSSPQRKQSPPRHRSP 227
Cdd:PRK12678    59 RGGGAAAAAATPAAPAAAARRAARAAAAARQAEQPAAEAAAAKAEAAPAARAAAAAAAEAASAPEAAQARERRERGEAAR 138

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  228 MREKGRH------------DHERTSQSHDRRHERREDTRGKRDREKDSREEREYEQDQSSSRDHRDDREPRDGRDRRDAR 295
Cdd:PRK12678   139 RGAARKAgeggeqpatearADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGRDGDDRDRRDRREQGDRREER 218

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1834199525  296 DTRDRRELRDSRDMRDSREMRDysrdtKESRDPRDSRSTRDAHDYRDREGRDTHRKED 353
Cdd:PRK12678   219 GRRDGGDRRGRRRRRDRRDARG-----DDNREDRGDRDGDDGEGRGGRRGRRFRDRDR 271
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 303-406 3.69e-04

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 44.91  E-value: 3.69e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  303 LRDSRDMRDSREMRDYSRDTKESRDpRDSRSTRDAHDYRDREgRDTHRKEDTYPEESRSYGRNHLREESSRTEIRNESRN 382
Cdd:TIGR01622   10 LRDSSSAGDRDRRRDKGRERSRDRS-RDRERSRSRRRDRHRD-RDYYRGRERRSRSRRPNRRYRPREKRRRRGDSYRRRR 87

                           90       100
                   ....*....|....*....|....
gi 1834199525  383 ESRSEIRNDRMGRSRGRVPELPEK 406
Cdd:TIGR01622   88 DDRRSRREKPRARDGTPEPLTEDE 111
2a38euk TIGR00934
potassium uptake protein, Trk family; The proteins of the Trk family are derived from ...
 135-399 1.01e-03

potassium uptake protein, Trk family; The proteins of the Trk family are derived from Gram-negative and Gram-positive bacteria, yeast and wheat. The proteins of E. coli K12 TrkH and TrkG as well as several yeast proteins have been functionally characterized.The E. coli TrkH and TrkG proteins are complexed to two peripheral membrane proteins, TrkA, an NAD-binding protein, and TrkE, an ATP-binding protein. This complex forms the potassium uptake system. This family is specific for the eukaryotic Trk system. [Transport and binding proteins, Cations and iron carrying compounds]


Pssm-ID: 130009 [Multi-domain]  Cd Length: 800  Bit Score: 43.82  E-value: 1.01e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  135 RDFERQREKRDKPRSTSPAGQHHSPISSRHHSSSSQSGSSIQRHSPSPRRKRTPSPSYQRTLTPP---LRRSASPYPSHS 211
Cdd:TIGR00934  156 RELEDRPETGVAGRVTVPHGSAKRRDFQDKLFSGEFVKRDEPDQNSPDVKSDTRADESISDLEFEkfaKRRGSRDVDPED 235

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  212 LsspqrkqspprHRSPMREKGRHDHERTSQSHDRRHERREdtrgkrdrEKDSREEREYEQDQSSSRDHRDDREPRDGRDR 291
Cdd:TIGR00934  236 L-----------YRSIMMLQGIHERIREKSSANSRSDERS--------SESIQEQVERRPSTSDIERNSQSLTRRYDDKS 296

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  292 RDARDTRDRRELRDSRDMRDSREMRDYsRDTKESRDPRDSRSTRDAHDYRDREGRDTHRKEDTYPEESRS---YGRNHLR 368
Cdd:TIGR00934  297 FDKAVRLRRSKTIDRAEACDLEELDRA-KDFEKMTYDNWKAHHRKKKNFRPRGWNLKFRKASRFPKDSDRnyeDNGNHLS 375

                          250       260       270
                   ....*....|....*....|....*....|..
gi 1834199525  369 EESSRT-EIRNESRNESRSEIRNDRMGRSRGR 399
Cdd:TIGR00934  376 ASSSFGsEEPSLSSEENLYPTYNKKREDSRHT 407
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 215-323 3.59e-03

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 41.80  E-value: 3.59e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  215 PQRKQSPPRHRSPMREKGRHDHERTSQSHDRRHERREDTRGKRDREKDsREEREYEQDQSSSRDHRDDREPRDGRDRRDA 294
Cdd:TIGR01642    5 PDREREKSRGRDRDRSSERPRRRSRDRSRFRDRHRRSRERSYREDSRP-RDRRRYDSRSPRSLRYSSVRRSRDRPRRRSR 83

                           90       100
                   ....*....|....*....|....*....
gi 1834199525  295 RDTRDRRELRDSRDMRDSREMRDYSRDTK 323
Cdd:TIGR01642   84 SVRSIEQHRRRLRDRSPSNQWRKDDKKRS 112
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 225-341 4.78e-03

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 41.44  E-value: 4.78e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  225 RSPMREKGRHDHERTSQSHDRRHERreDTRGKRDREKDSREEREYEQDQSSSRDHRDDREPRDGRDRRDARDTRDRRELR 304
Cdd:TIGR01622    1 RYRDRERERLRDSSSAGDRDRRRDK--GRERSRDRSRDRERSRSRRRDRHRDRDYYRGRERRSRSRRPNRRYRPREKRRR 78

                           90       100       110
                   ....*....|....*....|....*....|....*..
gi 1834199525  305 DSRDMRDSREMRDYSRDTKESRDPRDSRSTRDAHDYR 341
Cdd:TIGR01622   79 RGDSYRRRRDDRRSRREKPRARDGTPEPLTEDERDRR 115
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 245-362 5.32e-03

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 41.03  E-value: 5.32e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199525  245 RRHERREDTRGKRDREKDSREEREYEQDQSSSRDHRDDREPRDGRDRRDARDTRdrrelRDSRDMRDSREMRDYSRDTKE 324
Cdd:TIGR01642    1 RDEEPDREREKSRGRDRDRSSERPRRRSRDRSRFRDRHRRSRERSYREDSRPRD-----RRRYDSRSPRSLRYSSVRRSR 75

                           90       100       110
                   ....*....|....*....|....*....|....*...
gi 1834199525  325 SRDPRDSRSTRDAHDYRDREGRDTHRKEDTYPEESRSY 362
Cdd:TIGR01642   76 DRPRRRSRSVRSIEQHRRRLRDRSPSNQWRKDDKKRSL 113
 
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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