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Conserved domains on  [gi|212276121|ref|NP_001131026|]
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malignant T-cell-amplified sequence 1 isoform 2 [Homo sapiens]

Protein Classification

malignant T-cell-amplified sequence family protein( domain architecture ID 15300156)

malignant T-cell-amplified sequence family protein similar to MCT-1 (multiple copies T cell malignancies 1), also known as MCTS-1 (malignant T cell-amplified sequence 1), which, together with DENR (density regulated protein), has been shown to have similar function as the eIF2D translation initiation factor (also known as ligatin), which is involved in the recruitment and delivery of aminoacyl-tRNAs to the P-site of the eukaryotic ribosome in a GTP-independent manner.

Gene Ontology:  GO:0003723|GO:0003743|GO:0001731
PubMed:  20713520

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PUA_MCTS-1-like cd21155
PUA RNA-binding domain of malignant T cell-amplified sequence 1 and related proteins; The ...
 81-176 4.10e-73

PUA RNA-binding domain of malignant T cell-amplified sequence 1 and related proteins; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Members of this eukaryotic family, labelled MCT-1 (malignant T cell-amplified sequence 1) or MCTS-1 (multiple copies T-cell lymphoma-1), contain a single PUA domain. They may play roles in the regulation of the cell cycle; human MCT-1 has been characterized for its oncogenic potential. MCT-1/MCTS1 expression is a new poor-prognosis marker in patients with aggressive breast cancers, and thus the MCT-1 pathway is a novel and promising therapeutic target for triple-negative breast cancer (TNBC).


:

Pssm-ID: 409297  Cd Length: 97  Bit Score: 215.04  E-value: 4.10e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121  81 PTLRLLHKYPFILPHQQVDKGAIKFVLSGANIMCPGLTSPGAKLYPA-AVDTIVAIMAEGKQHALCVGVMKMSAEDIEKV 159
Cdd:cd21155    1 PTLRLLHKYPFMLPKVQVDKGAIKFVLSGANIMCPGLTSPGGKLPDDvEKGTVVAIMAEGKEHALAIGITKMSSEDIKKV 80

                         90
                 ....*....|....*..
gi 212276121 160 NKGIGIENIHYLNDGLW 176
Cdd:cd21155   81 NKGIGIENIHYLGDGLW 97
MCT1_N cd11609
N-terminal domain of multiple copies T cell malignancies 1 and related proteins; This ...
 5-81 9.83e-43

N-terminal domain of multiple copies T cell malignancies 1 and related proteins; This N-terminal domain of MCT-1 (multiple copies T cell malignancies 1), also known as MCTS-1 (malignant T cell-amplified sequence 1), co-occurs with a PUA domain. MCT-1, together with DENR (density regulated protein), has been shown to have similar function as eIF2D translation initiation factor (also known as ligatin), which is involved in the recruitment and delivery of aminoacyl-tRNAs to the P-site of the eukaryotic ribosome in a GTP-independent manner.


:

Pssm-ID: 211422  Cd Length: 77  Bit Score: 137.28  E-value: 9.83e-43
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 212276121   5 RFDEKENVSNCIQLKTSVIKGIKNQLIEQFPGIEPWLNQIMPKKDPVKIVRCHEHIEILTVNGELLFFRQREGPFYP 81
Cdd:cd11609    1 KFFEKEDVSGQTQLKSSVQRGIRAKLLEQYPLLEPYIDEILPKKEPLVLVKCHDHIELLVVNGEPLFFQHRDGPYIP 77
 
Name Accession Description Interval E-value
PUA_MCTS-1-like cd21155
PUA RNA-binding domain of malignant T cell-amplified sequence 1 and related proteins; The ...
 81-176 4.10e-73

PUA RNA-binding domain of malignant T cell-amplified sequence 1 and related proteins; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Members of this eukaryotic family, labelled MCT-1 (malignant T cell-amplified sequence 1) or MCTS-1 (multiple copies T-cell lymphoma-1), contain a single PUA domain. They may play roles in the regulation of the cell cycle; human MCT-1 has been characterized for its oncogenic potential. MCT-1/MCTS1 expression is a new poor-prognosis marker in patients with aggressive breast cancers, and thus the MCT-1 pathway is a novel and promising therapeutic target for triple-negative breast cancer (TNBC).


Pssm-ID: 409297  Cd Length: 97  Bit Score: 215.04  E-value: 4.10e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121  81 PTLRLLHKYPFILPHQQVDKGAIKFVLSGANIMCPGLTSPGAKLYPA-AVDTIVAIMAEGKQHALCVGVMKMSAEDIEKV 159
Cdd:cd21155    1 PTLRLLHKYPFMLPKVQVDKGAIKFVLSGANIMCPGLTSPGGKLPDDvEKGTVVAIMAEGKEHALAIGITKMSSEDIKKV 80

                         90
                 ....*....|....*..
gi 212276121 160 NKGIGIENIHYLNDGLW 176
Cdd:cd21155   81 NKGIGIENIHYLGDGLW 97
MCT1_N cd11609
N-terminal domain of multiple copies T cell malignancies 1 and related proteins; This ...
 5-81 9.83e-43

N-terminal domain of multiple copies T cell malignancies 1 and related proteins; This N-terminal domain of MCT-1 (multiple copies T cell malignancies 1), also known as MCTS-1 (malignant T cell-amplified sequence 1), co-occurs with a PUA domain. MCT-1, together with DENR (density regulated protein), has been shown to have similar function as eIF2D translation initiation factor (also known as ligatin), which is involved in the recruitment and delivery of aminoacyl-tRNAs to the P-site of the eukaryotic ribosome in a GTP-independent manner.


Pssm-ID: 211422  Cd Length: 77  Bit Score: 137.28  E-value: 9.83e-43
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 212276121   5 RFDEKENVSNCIQLKTSVIKGIKNQLIEQFPGIEPWLNQIMPKKDPVKIVRCHEHIEILTVNGELLFFRQREGPFYP 81
Cdd:cd11609    1 KFFEKEDVSGQTQLKSSVQRGIRAKLLEQYPLLEPYIDEILPKKEPLVLVKCHDHIELLVVNGEPLFFQHRDGPYIP 77
Pre-PUA pfam17832
Pre-PUA-like domain; This Pre-PUA-like domain is found in a wide variety of proteins including ...
 6-90 3.40e-34

Pre-PUA-like domain; This Pre-PUA-like domain is found in a wide variety of proteins including the eukaryotic translation initiation factor 2D, where it is found at the N-terminus.


Pssm-ID: 436077  Cd Length: 86  Bit Score: 115.75  E-value: 3.40e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121    6 FDEKENVSNCIQLKTSVIKGIKNQLIEQFPGIEPWLNQIMPKKDPVKIVRCH-EHIEILTVNGELLFFRQREGPFYPTLR 84
Cdd:pfam17832   1 FKKPFKVKSNTQLKSSDRRKLRAKLLEQFPSLEEQLDELLPKKEEVIVIKLHtEHVSLYSVDGEPLFFQVRDGPLYPTLY 80


                  ....*.
gi 212276121   85 LLHKYP 90
Cdd:pfam17832  81 LLWKYP 86
Tma20 COG2016
Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ...
 17-176 4.44e-32

Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441619 [Multi-domain]  Cd Length: 154  Bit Score: 112.57  E-value: 4.44e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121  17 QLKTSVIKGIKNQLIEQFpGIEPwlnqimpKKDPVKIVRcHEHIEILTVNGELLFFRQREGPFyPTLRLLHKYPFILPHQ 96
Cdd:COG2016    7 HLSKKEIKELLEELEERL-GVDL-------SGDNVEVAE-TDDFEIYLVDGEPLLFKVDDEPF-PTLRGLLKYPPEKPVV 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121  97 QVDKGAIKFVLSGANIMCPGLTSPGAKLYPaavDTIVAIMAEGKQHALCVGVMKMSAEDIEKVNKGIGIENIHYLNDGLW 176
Cdd:COG2016   77 TVDMGAVKFVSNGADVMRPGIVEADGEIKE---GDIVVIVEEKHGKPLAVGRALVDGEEMVEGKKGKAVKNLHHVGDKLW 153
arCOG00985 TIGR03684
arCOG04150 universal archaeal PUA-domain protein; This universal archaeal protein contains a ...
 17-176 1.98e-28

arCOG04150 universal archaeal PUA-domain protein; This universal archaeal protein contains a domain possibly associated with RNA binding (pfam01472, TIGR00451).


Pssm-ID: 274723 [Multi-domain]  Cd Length: 150  Bit Score: 103.07  E-value: 1.98e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121   17 QLKTSVIKGIKNQLIEQFpGIEPwlnqimpKKDPVKIVRCHEhIEILTVNGELLFFrQREGPFYPTLRLLHKYPFILPHQ 96
Cdd:TIGR03684   3 FLSKKEIKELLEELKEYY-GIDI-------EKAKLEVAETDK-FEIYLVDGKPLLF-EVDGRLFPTLYGLLELNPDKNVV 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121   97 QVDKGAIKFVLSGANIMCPGLTSpgaklypaAVDTI-----VAIMAEGKQHALCVGVMKMSAEDIEKVNKGIGIENIHYL 171
Cdd:TIGR03684  73 VVDEGAVKFIINGADIMAPGIVE--------ADPSIkegdiVFVVDETHGKPLAVGIALMDAEEMVEEKKGKAVKNIHHV 144


                  ....*
gi 212276121  172 NDGLW 176
Cdd:TIGR03684 145 GDKIW 149
PRK14560 PRK14560
putative RNA-binding protein; Provisional
 17-179 2.41e-28

putative RNA-binding protein; Provisional


Pssm-ID: 237757 [Multi-domain]  Cd Length: 160  Bit Score: 103.39  E-value: 2.41e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121  17 QLKTSVIKGIKNQLIEQFpGIEpwlnqiMPKKDPVKIVRCHEHIEILTVNGELLFFRQREGPFyPTLRLLHKYPFILPHQ 96
Cdd:PRK14560   8 HLSKKEVKEIKEELKEKF-GVD------IDGKDAVEEVETDKKEEIYLVDGEPLFFKVDDELF-PTLRGALKLKPEKRRV 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121  97 QVDKGAIKFVLSGANIMCPGLTS--PGAKlypaaVDTIVAIMAEGKQHALCVGVMKMSAEDIEKVNKGIGIENIHYLNDG 174
Cdd:PRK14560  80 VVDAGAVKFVSNGADVMAPGIVEadEDIK-----EGDIVFVVEETHGKPLAVGRALMDGDEMVEEKKGKAVKNIHHVGDE 154


                 ....*
gi 212276121 175 LWHMK 179
Cdd:PRK14560 155 IWEFE 159
PUA pfam01472
PUA domain; The PUA domain named after Pseudouridine synthase and Archaeosine transglycosylase, ...
 94-171 1.37e-17

PUA domain; The PUA domain named after Pseudouridine synthase and Archaeosine transglycosylase, was detected in archaeal and eukaryotic pseudouridine synthases, archaeal archaeosine synthases, a family of predicted ATPases that may be involved in RNA modification, a family of predicted archaeal and bacterial rRNA methylases. Additionally, the PUA domain was detected in a family of eukaryotic proteins that also contain a domain homologous to the translation initiation factor eIF1/SUI1; these proteins may comprise a novel type of translation factors. Unexpectedly, the PUA domain was detected also in bacterial and yeast glutamate kinases; this is compatible with the demonstrated role of these enzymes in the regulation of the expression of other genes. It is predicted that the PUA domain is an RNA binding domain.


Pssm-ID: 426278 [Multi-domain]  Cd Length: 74  Bit Score: 72.90  E-value: 1.37e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 212276121   94 PHQQVDKGAIKFVLSGANIMCPGLTSPGAKLypaAVDTIVAIMAEgKQHALCVGVMKMSAEDIEKVNKGIGIENIHYL 171
Cdd:pfam01472   1 GRVVVDDGAVKAILNGASLLAPGVVRVDGDF---RKGDEVVVVTE-KGELVAVGLANYSSEELAKIEGGKAVKVRRVL 74
PUA smart00359
Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;
98-171 1.66e-10

Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;


Pssm-ID: 214635 [Multi-domain]  Cd Length: 76  Bit Score: 54.57  E-value: 1.66e-10
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 212276121    98 VDKGAIKFVLSGANIMCPGLTSPGAKLYPaavDTIVAIMAEgKQHALCVGVMKMSAEDIEKVN-KGIGIENIHYL 171
Cdd:smart00359   5 VDDGAEKAILNGASLLAPGVVRVDGDIKE---GDVVVIVDE-KGEPLGIGLANMSSEEIARIKgKGLAVKVRRAV 75
 
Name Accession Description Interval E-value
PUA_MCTS-1-like cd21155
PUA RNA-binding domain of malignant T cell-amplified sequence 1 and related proteins; The ...
 81-176 4.10e-73

PUA RNA-binding domain of malignant T cell-amplified sequence 1 and related proteins; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Members of this eukaryotic family, labelled MCT-1 (malignant T cell-amplified sequence 1) or MCTS-1 (multiple copies T-cell lymphoma-1), contain a single PUA domain. They may play roles in the regulation of the cell cycle; human MCT-1 has been characterized for its oncogenic potential. MCT-1/MCTS1 expression is a new poor-prognosis marker in patients with aggressive breast cancers, and thus the MCT-1 pathway is a novel and promising therapeutic target for triple-negative breast cancer (TNBC).


Pssm-ID: 409297  Cd Length: 97  Bit Score: 215.04  E-value: 4.10e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121  81 PTLRLLHKYPFILPHQQVDKGAIKFVLSGANIMCPGLTSPGAKLYPA-AVDTIVAIMAEGKQHALCVGVMKMSAEDIEKV 159
Cdd:cd21155    1 PTLRLLHKYPFMLPKVQVDKGAIKFVLSGANIMCPGLTSPGGKLPDDvEKGTVVAIMAEGKEHALAIGITKMSSEDIKKV 80

                         90
                 ....*....|....*..
gi 212276121 160 NKGIGIENIHYLNDGLW 176
Cdd:cd21155   81 NKGIGIENIHYLGDGLW 97
MCT1_N cd11609
N-terminal domain of multiple copies T cell malignancies 1 and related proteins; This ...
 5-81 9.83e-43

N-terminal domain of multiple copies T cell malignancies 1 and related proteins; This N-terminal domain of MCT-1 (multiple copies T cell malignancies 1), also known as MCTS-1 (malignant T cell-amplified sequence 1), co-occurs with a PUA domain. MCT-1, together with DENR (density regulated protein), has been shown to have similar function as eIF2D translation initiation factor (also known as ligatin), which is involved in the recruitment and delivery of aminoacyl-tRNAs to the P-site of the eukaryotic ribosome in a GTP-independent manner.


Pssm-ID: 211422  Cd Length: 77  Bit Score: 137.28  E-value: 9.83e-43
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 212276121   5 RFDEKENVSNCIQLKTSVIKGIKNQLIEQFPGIEPWLNQIMPKKDPVKIVRCHEHIEILTVNGELLFFRQREGPFYP 81
Cdd:cd11609    1 KFFEKEDVSGQTQLKSSVQRGIRAKLLEQYPLLEPYIDEILPKKEPLVLVKCHDHIELLVVNGEPLFFQHRDGPYIP 77
Pre-PUA pfam17832
Pre-PUA-like domain; This Pre-PUA-like domain is found in a wide variety of proteins including ...
 6-90 3.40e-34

Pre-PUA-like domain; This Pre-PUA-like domain is found in a wide variety of proteins including the eukaryotic translation initiation factor 2D, where it is found at the N-terminus.


Pssm-ID: 436077  Cd Length: 86  Bit Score: 115.75  E-value: 3.40e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121    6 FDEKENVSNCIQLKTSVIKGIKNQLIEQFPGIEPWLNQIMPKKDPVKIVRCH-EHIEILTVNGELLFFRQREGPFYPTLR 84
Cdd:pfam17832   1 FKKPFKVKSNTQLKSSDRRKLRAKLLEQFPSLEEQLDELLPKKEEVIVIKLHtEHVSLYSVDGEPLFFQVRDGPLYPTLY 80


                  ....*.
gi 212276121   85 LLHKYP 90
Cdd:pfam17832  81 LLWKYP 86
Tma20 COG2016
Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ...
 17-176 4.44e-32

Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441619 [Multi-domain]  Cd Length: 154  Bit Score: 112.57  E-value: 4.44e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121  17 QLKTSVIKGIKNQLIEQFpGIEPwlnqimpKKDPVKIVRcHEHIEILTVNGELLFFRQREGPFyPTLRLLHKYPFILPHQ 96
Cdd:COG2016    7 HLSKKEIKELLEELEERL-GVDL-------SGDNVEVAE-TDDFEIYLVDGEPLLFKVDDEPF-PTLRGLLKYPPEKPVV 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121  97 QVDKGAIKFVLSGANIMCPGLTSPGAKLYPaavDTIVAIMAEGKQHALCVGVMKMSAEDIEKVNKGIGIENIHYLNDGLW 176
Cdd:COG2016   77 TVDMGAVKFVSNGADVMRPGIVEADGEIKE---GDIVVIVEEKHGKPLAVGRALVDGEEMVEGKKGKAVKNLHHVGDKLW 153
eIF2D_N_like cd11580
N-terminal domain of eIF2D, malignant T cell-amplified sequence 1 and related proteins; This ...
 10-81 1.56e-28

N-terminal domain of eIF2D, malignant T cell-amplified sequence 1 and related proteins; This N-terminal domain of various proteins co-occurs with a PUA domain. Members of this family are: (1) MCTS-1 (malignant T cell-amplified sequence 1) or MCT-1 (multiple copies T cell malignancies), which may play roles in the regulation of the cell cycle, (2) the eukayotic translation initiation factor 2D, and (3) an uncharacterized archaeal family.


Pssm-ID: 211421  Cd Length: 72  Bit Score: 100.89  E-value: 1.56e-28
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 212276121  10 ENVSNCIQLKTSVIKGIKNQLIEQFPGIEPWLNQIMPKKDPVKIVRCHEHIEILTVNGELLFFRQREGPFYP 81
Cdd:cd11580    1 EKLKNKTQLSKKDVKKLREQLIEQFPLLEEILDEIFPKKAPVKVQKFDTHYEIYTVDGEPVFFELDEGEVFP 72
arCOG00985 TIGR03684
arCOG04150 universal archaeal PUA-domain protein; This universal archaeal protein contains a ...
 17-176 1.98e-28

arCOG04150 universal archaeal PUA-domain protein; This universal archaeal protein contains a domain possibly associated with RNA binding (pfam01472, TIGR00451).


Pssm-ID: 274723 [Multi-domain]  Cd Length: 150  Bit Score: 103.07  E-value: 1.98e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121   17 QLKTSVIKGIKNQLIEQFpGIEPwlnqimpKKDPVKIVRCHEhIEILTVNGELLFFrQREGPFYPTLRLLHKYPFILPHQ 96
Cdd:TIGR03684   3 FLSKKEIKELLEELKEYY-GIDI-------EKAKLEVAETDK-FEIYLVDGKPLLF-EVDGRLFPTLYGLLELNPDKNVV 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121   97 QVDKGAIKFVLSGANIMCPGLTSpgaklypaAVDTI-----VAIMAEGKQHALCVGVMKMSAEDIEKVNKGIGIENIHYL 171
Cdd:TIGR03684  73 VVDEGAVKFIINGADIMAPGIVE--------ADPSIkegdiVFVVDETHGKPLAVGIALMDAEEMVEEKKGKAVKNIHHV 144


                  ....*
gi 212276121  172 NDGLW 176
Cdd:TIGR03684 145 GDKIW 149
PRK14560 PRK14560
putative RNA-binding protein; Provisional
 17-179 2.41e-28

putative RNA-binding protein; Provisional


Pssm-ID: 237757 [Multi-domain]  Cd Length: 160  Bit Score: 103.39  E-value: 2.41e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121  17 QLKTSVIKGIKNQLIEQFpGIEpwlnqiMPKKDPVKIVRCHEHIEILTVNGELLFFRQREGPFyPTLRLLHKYPFILPHQ 96
Cdd:PRK14560   8 HLSKKEVKEIKEELKEKF-GVD------IDGKDAVEEVETDKKEEIYLVDGEPLFFKVDDELF-PTLRGALKLKPEKRRV 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121  97 QVDKGAIKFVLSGANIMCPGLTS--PGAKlypaaVDTIVAIMAEGKQHALCVGVMKMSAEDIEKVNKGIGIENIHYLNDG 174
Cdd:PRK14560  80 VVDAGAVKFVSNGADVMAPGIVEadEDIK-----EGDIVFVVEETHGKPLAVGRALMDGDEMVEEKKGKAVKNIHHVGDE 154


                 ....*
gi 212276121 175 LWHMK 179
Cdd:PRK14560 155 IWEFE 159
unchar_dom_2 TIGR00451
uncharacterized domain 2; This uncharacterized domain is found a number of enzymes and ...
 65-173 2.72e-27

uncharacterized domain 2; This uncharacterized domain is found a number of enzymes and uncharacterized proteins, often at the C-terminus. It is found in some but not all members of a family of related tRNA-guanine transglycosylases (tgt), which exchange a guanine base for some modified base without breaking the phosphodiester backbone of the tRNA. It is also found in rRNA pseudouridine synthase, another enzyme of RNA base modification not otherwise homologous to tgt. It is found, again at the C-terminus, in two putative glutamate 5-kinases. It is also found in a family of small, uncharacterized archaeal proteins consisting mostly of this domain.


Pssm-ID: 129543 [Multi-domain]  Cd Length: 107  Bit Score: 99.04  E-value: 2.72e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121   65 VNGELLFFrQREGPFYPTLRLLHKYPFILPHQQVDKGAIKFVLSGANIMCPGLTSPGAKLypaAVDTIVAIMAEGKQHAL 144
Cdd:TIGR00451   3 VDGEPLYF-IYDDKVIPSLKGALKLMEDKKIVVVDNGAVKFLKNGADVMRPGIVDADEDI---KEGDDVVVVDENKDRPL 78

                          90       100
                  ....*....|....*....|....*....
gi 212276121  145 CVGVMKMSAEDIEKVNKGIGIENIHYLND 173
Cdd:TIGR00451  79 AVGIALMSGEEMKEMDKGKAVKNIHHIGD 107
PUA cd07953
PUA RNA binding domain; The PUA (PseudoUridine synthase and Archaeosine transglycosylase) ...
 94-170 1.79e-19

PUA RNA binding domain; The PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in archaeal and eukaryotic pseudouridine synthases, archaeal archaeosine synthases, a family of predicted ATPases that may be involved in RNA modification, and a family of predicted archaeal and bacterial rRNA methylases. Additionally, the PUA domain was detected in a family of eukaryotic proteins that also contain a domain homologous to the translation initiation factor eIF1/SUI1; these proteins may comprise a novel type of translation factors. Unexpectedly, the PUA domain was also found in bacterial and yeast glutamate kinases; this is compatible with the demonstrated role of these enzymes in regulating the expression of other genes. It has been shown that the PUA domain acts as an RNA binding domain in at least some of the proteins involved in RNA metabolism.


Pssm-ID: 409289 [Multi-domain]  Cd Length: 73  Bit Score: 77.72  E-value: 1.79e-19
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 212276121  94 PHQQVDKGAIKFVLSGANIMCPGLTSPgakLYPAAVDTIVAIMAEGKqHALCVGVMKMSAEDIEKVNKGIGIENIHY 170
Cdd:cd07953    1 PVVVVDKGAEKAVLNGADLMAPGVVSA---DGDFKRGDLVRIVSEGG-RPLAIGVAEMSSDEMKEELKGIAVRVLHF 73
PUA_MJ1432-like cd21154
PUA RNA-binding domain of MJ1432, TA1423, PH0734, and similar proteins; The RNA-binding PUA ...
 93-178 2.59e-19

PUA RNA-binding domain of MJ1432, TA1423, PH0734, and similar proteins; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Members of this mostly archaeal family have not been characterized functionally; they may bind to RNA. This family includes Pyrococcus horikoshii PH0734 where the N-terminal domain may modulate the binding target of the C-terminal PUA domain using its characteristic electropositive surface.


Pssm-ID: 409296 [Multi-domain]  Cd Length: 84  Bit Score: 77.54  E-value: 2.59e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121  93 LPHQQVDKGAIKFVLSGANIMCPGLT--SPGAKLypaavDTIVAIMAEGKQHALCVGVMKMSAEDIEKVNKGIGIENIHY 170
Cdd:cd21154    2 LPRVVVDMGAVKFVANGADVMRPGIVeaDEEIKK-----GDIVVVVDERHGKPLAVGIALMSGEEMVEMKKGKAVKNLHY 76


                 ....*...
gi 212276121 171 LNDGLWHM 178
Cdd:cd21154   77 VGDKIWKL 84
PUA pfam01472
PUA domain; The PUA domain named after Pseudouridine synthase and Archaeosine transglycosylase, ...
 94-171 1.37e-17

PUA domain; The PUA domain named after Pseudouridine synthase and Archaeosine transglycosylase, was detected in archaeal and eukaryotic pseudouridine synthases, archaeal archaeosine synthases, a family of predicted ATPases that may be involved in RNA modification, a family of predicted archaeal and bacterial rRNA methylases. Additionally, the PUA domain was detected in a family of eukaryotic proteins that also contain a domain homologous to the translation initiation factor eIF1/SUI1; these proteins may comprise a novel type of translation factors. Unexpectedly, the PUA domain was detected also in bacterial and yeast glutamate kinases; this is compatible with the demonstrated role of these enzymes in the regulation of the expression of other genes. It is predicted that the PUA domain is an RNA binding domain.


Pssm-ID: 426278 [Multi-domain]  Cd Length: 74  Bit Score: 72.90  E-value: 1.37e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 212276121   94 PHQQVDKGAIKFVLSGANIMCPGLTSPGAKLypaAVDTIVAIMAEgKQHALCVGVMKMSAEDIEKVNKGIGIENIHYL 171
Cdd:pfam01472   1 GRVVVDDGAVKAILNGASLLAPGVVRVDGDF---RKGDEVVVVTE-KGELVAVGLANYSSEELAKIEGGKAVKVRRVL 74
PUA smart00359
Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;
98-171 1.66e-10

Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;


Pssm-ID: 214635 [Multi-domain]  Cd Length: 76  Bit Score: 54.57  E-value: 1.66e-10
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 212276121    98 VDKGAIKFVLSGANIMCPGLTSPGAKLYPaavDTIVAIMAEgKQHALCVGVMKMSAEDIEKVN-KGIGIENIHYL 171
Cdd:smart00359   5 VDDGAEKAILNGASLLAPGVVRVDGDIKE---GDVVVIVDE-KGEPLGIGLANMSSEEIARIKgKGLAVKVRRAV 75
PUA_eIF2d-like cd21156
PUA RNA-binding domain of eukaryotic translation initiation factor 2D and similar proteins; ...
 90-172 1.41e-08

PUA RNA-binding domain of eukaryotic translation initiation factor 2D and similar proteins; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Most members of this eukaryotic translation initiation factor 2D (eIF2d)-like family of eukaryotic proteins also contain a domain homologous to the translation initiation factor eIF1/SUI1, and a short uncharacterized N-terminal domain. eIF2D may function as a cytosolic GTP-independent initiation factor which delivers Met-tRNA (and non-initiating tRNAs) to the 40S ribosomal subunit. The family member from Drosophila melanogaster has been named ligatin, and this alias has been adopted for other family members as well, which are not homologous to the vertebrate ligatin (LGTN) that is a trafficking receptor for phosphoglycoproteins.


Pssm-ID: 409298 [Multi-domain]  Cd Length: 82  Bit Score: 49.49  E-value: 1.41e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 212276121  90 PFILPHQQVdkgaIKFVLSGANIMCPGLTSPGAKLYPAAVDTIVAIMAEGKQHALCVGVMKMSAEDIEKVN-KGIGIENI 168
Cdd:cd21156    3 PVFTTHPPV----SEKLLGGADLMLPGVIVPPPGLPPFEKGSLVAVAVLGNPAPVAVGRAAMSSEDMYASGmKGKGVEVL 78


                 ....
gi 212276121 169 HYLN 172
Cdd:cd21156   79 HTYG 82
PRK13795 PRK13795
hypothetical protein; Provisional
 98-166 1.26e-04

hypothetical protein; Provisional


Pssm-ID: 237510 [Multi-domain]  Cd Length: 636  Bit Score: 41.52  E-value: 1.26e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 212276121  98 VDKGAIKFVLSGANIMCPGLTS--PGAKLYpaavDTIVAIMAEGKQHAlcVGVMKMSAEDIEKVNKGIGIE 166
Cdd:PRK13795 131 VDKGALEPIKNGKNVLAPGVVEadLDIKKG----DEVVVVTEDGEVVG--VGRAKMDGDDMIKRFRGRAVK 195
eIF2D_N cd11610
N-terminal domain of eIF2D and related proteins; This N-terminal domain of eIF2D co-occurs ...
 17-81 2.72e-03

N-terminal domain of eIF2D and related proteins; This N-terminal domain of eIF2D co-occurs with a PUA domain. eIF2D translation initiation factor (also known as ligatin) is involved in the recruitment and delivery of aminoacyl-tRNAs to the P-site of the eukaryotic ribosome in a GTP-independent manner.


Pssm-ID: 211423  Cd Length: 76  Bit Score: 35.33  E-value: 2.72e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 212276121  17 QLKTSVIKGIKNQLIEQFPGI-EPWLNQIMPKKDPVKIVRCHEHIEILTV---NGELLFFRQREGPFYP 81
Cdd:cd11610    8 ALKGSDRKKLRARVLKAFPLLtEEDLDELVPNKEELSVVKLVTHGERVTVysvDGVPLFFELSDGNLYP 76
PUA_archaeosine_TGT cd21149
PUA RNA-binding domain of archaeosine tRNA-guanine transglycosylase; The RNA-binding PUA ...
 98-166 5.89e-03

PUA RNA-binding domain of archaeosine tRNA-guanine transglycosylase; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Members of this archaeosine tRNA-guanine transglycosylase (TGT) family are responsible for the exchange of a guanine residue in archaeal tRNAs with a preQ0 base (7-cyano-7-deazaguanine), which constitutes the initial step in archaeosine biosynthesis. Archaeosine is a modified RNA base specific to archaea (7-formamidino-7deazaguanosine), found at position 15 in tRNAs. It has been shown that the PUA domain of archaeosine TGT is not required for its specificity for position 15.


Pssm-ID: 409291 [Multi-domain]  Cd Length: 75  Bit Score: 34.12  E-value: 5.89e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 212276121  98 VDKGAIKFVLSGANIMCPGLTSPGAKLYPAavdTIVAIMAEGKQhALCVGVMKMSAEDIEKVNKGIGIE 166
Cdd:cd21149    7 VNKESAPFVRKGGSVFAKGVVDADENIRPG---DEVLVVDEDDR-LLAVGRAVLSGKEMKEFERGVAVK 71
PUA_Cbf5 cd21148
PUA RNA-binding domain of the archaeal pseudouridine synthase component Cbf5; The RNA-binding ...
 109-163 5.94e-03

PUA RNA-binding domain of the archaeal pseudouridine synthase component Cbf5; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Members of the archaeal and eukaryotic subfamily of pseudouridine synthases, including Cbf5 (dyskerin in humans) and similar proteins, are modules that assist in the binding and positioning (guide and/or substrate) of RNA to the pseudouridine synthase complex. Pseudouridine synthases are enzymes that are responsible for post-translational modifications of RNAs by specifically isomerizing uracil residues. In Pyrococcus furiosus H/ACA ribonucleoprotein (RNP) assembly with a single-hairpin H/ACA RNA, the lower stem and the ACA motif of the guide RNA are anchored at the PUA domain of Cbf5. In addition, the N-terminal extension of Cbf5, which is a hot spot for dyskeratosis congenita (a rare genetic form of bone marrow failure) mutation, forms an extra structural layer on the PUA domain.


Pssm-ID: 409290 [Multi-domain]  Cd Length: 75  Bit Score: 34.37  E-value: 5.94e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 212276121 109 GANIMCPGLtspgAKLYPA-AVDTIVAIMAEgKQHALCVGVMKMSAEDIEKVNKGI 163
Cdd:cd21148   18 GAKLAIPGV----LRYEDGiEKGDEVVIMTT-KGEAVALGIALMTTAEIATCDHGI 68
PRK04270 PRK04270
RNA-guided pseudouridylation complex pseudouridine synthase subunit Cbf5;
93-166 6.87e-03

RNA-guided pseudouridylation complex pseudouridine synthase subunit Cbf5;


Pssm-ID: 179806 [Multi-domain]  Cd Length: 300  Bit Score: 35.99  E-value: 6.87e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 212276121  93 LPHQQVDKGAIKFVLSGANIMCPGLtspgAKLY-PAAVDTIVAIMAEgKQHALCVGVMKMSAEDIEKVNKGIGIE 166
Cdd:PRK04270 225 LPKIIIKDSAVDAIAHGAPLYAPGI----AKLEkGIKKGDLVAVFTL-KGELVALGKALMDSDEILKAEKGIVVD 294
 
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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