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Conserved domains on  [gi|1910492015|gb|KAF7655650|]
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hypothetical protein LDENG_00053060 [Lucifuga dentata]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PUA_eIF2d-like cd21156
PUA RNA-binding domain of eukaryotic translation initiation factor 2D and similar proteins; ...
 92-172 2.80e-40

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: 141.16  E-value: 2.80e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015  92 LLPTFTMWPPVLQKLIGGADLMLPGVVVPSSGLPDVKQGECCSVTVVNNRAPVAVGTATVSSAEMHSAGMKGKGVCVLHT 171
Cdd:cd21156     1 LLPVFTTHPPVSEKLLGGADLMLPGVIVPPPGLPPFEKGSLVAVAVLGNPAPVAVGRAAMSSEDMYASGMKGKGVEVLHT 80


                  .
gi 1910492015 172 Y 172
Cdd:cd21156    81 Y 81
eIF2D_C cd11608
C-terminal domain of eIF2D and related proteins; eIF2D translation initiation factor (also ...
 496-580 8.90e-33

C-terminal domain of eIF2D and related proteins; 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: 211321  Cd Length: 85  Bit Score: 120.75  E-value: 8.90e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015 496 PIDISVANRGSNKKVTLIKNLEVYGLDPAVVATALQHRVQASSVLQPIPGAKDKVLVQIQGNQIQRVGNLLLDHYQIPLK 575
Cdd:cd11608     1 PIDITTERRQGNKKVTLISGLESFGIDPEEFAKELQKKCAASTSVSPLPGKKKGVEVQVQGNQVKFVAKLLTEKYGVPKK 80


                  ....*
gi 1910492015 576 YIQGL 580
Cdd:cd11608    81 YIDGL 85
Pre-PUA pfam17832
Pre-PUA-like domain; This Pre-PUA-like domain is found in a wide variety of proteins including ...
 2-90 5.26e-32

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: 118.44  E-value: 5.26e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015   2 FAKPFRVKSNTVMKGSDRRKLRADIATAFPSLSaEQLSQLLPNKEELNVVKIYahkGDSVTLYVLHKNPLFFE-MEKRLF 80
Cdd:pfam17832   1 FKKPFKVKSNTQLKSSDRRKLRAKLLEQFPSLE-EQLDELLPKKEEVIVIKLH---TEHVSLYSVDGEPLFFQvRDGPLY 76

                          90
                  ....*....|
gi 1910492015  81 PTVYMLWLYP 90
Cdd:pfam17832  77 PTLYLLWKYP 86
 
Name Accession Description Interval E-value
PUA_eIF2d-like cd21156
PUA RNA-binding domain of eukaryotic translation initiation factor 2D and similar proteins; ...
 92-172 2.80e-40

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: 141.16  E-value: 2.80e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015  92 LLPTFTMWPPVLQKLIGGADLMLPGVVVPSSGLPDVKQGECCSVTVVNNRAPVAVGTATVSSAEMHSAGMKGKGVCVLHT 171
Cdd:cd21156     1 LLPVFTTHPPVSEKLLGGADLMLPGVIVPPPGLPPFEKGSLVAVAVLGNPAPVAVGRAAMSSEDMYASGMKGKGVEVLHT 80


                  .
gi 1910492015 172 Y 172
Cdd:cd21156    81 Y 81
eIF2D_C cd11608
C-terminal domain of eIF2D and related proteins; eIF2D translation initiation factor (also ...
 496-580 8.90e-33

C-terminal domain of eIF2D and related proteins; 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: 211321  Cd Length: 85  Bit Score: 120.75  E-value: 8.90e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015 496 PIDISVANRGSNKKVTLIKNLEVYGLDPAVVATALQHRVQASSVLQPIPGAKDKVLVQIQGNQIQRVGNLLLDHYQIPLK 575
Cdd:cd11608     1 PIDITTERRQGNKKVTLISGLESFGIDPEEFAKELQKKCAASTSVSPLPGKKKGVEVQVQGNQVKFVAKLLTEKYGVPKK 80


                  ....*
gi 1910492015 576 YIQGL 580
Cdd:cd11608    81 YIDGL 85
Pre-PUA pfam17832
Pre-PUA-like domain; This Pre-PUA-like domain is found in a wide variety of proteins including ...
 2-90 5.26e-32

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: 118.44  E-value: 5.26e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015   2 FAKPFRVKSNTVMKGSDRRKLRADIATAFPSLSaEQLSQLLPNKEELNVVKIYahkGDSVTLYVLHKNPLFFE-MEKRLF 80
Cdd:pfam17832   1 FKKPFKVKSNTQLKSSDRRKLRAKLLEQFPSLE-EQLDELLPKKEEVIVIKLH---TEHVSLYSVDGEPLFFQvRDGPLY 76

                          90
                  ....*....|
gi 1910492015  81 PTVYMLWLYP 90
Cdd:pfam17832  77 PTLYLLWKYP 86
eIF2D_N cd11610
N-terminal domain of eIF2D and related proteins; This N-terminal domain of eIF2D co-occurs ...
 6-81 3.42e-30

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: 113.14  E-value: 3.42e-30
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1910492015   6 FRVKSNTVMKGSDRRKLRADIATAFPSLSAEQLSQLLPNKEELNVVKIYAHkGDSVTLYVLHKNPLFFEME-KRLFP 81
Cdd:cd11610     1 FRVKSNTALKGSDRKKLRARVLKAFPLLTEEDLDELVPNKEELSVVKLVTH-GERVTVYSVDGVPLFFELSdGNLYP 76
SUI1 pfam01253
Translation initiation factor SUI1;
494-569 1.84e-14

Translation initiation factor SUI1;


Pssm-ID: 460137  Cd Length: 75  Bit Score: 68.62  E-value: 1.84e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1910492015 494 IEPIDISVANRGSNKKVTLIKNLEVYGLDPAVVATALQHRVQASSVLQPIPGakdKVLVQIQGNQIQRVGNLLLDH 569
Cdd:pfam01253   1 QPKIHIRVEQRGGRKTVTTVSGLEPFGIDLKKLAKELKKKFACGGTVVKDGG---GEEIQVQGDQRDKVAELLTEK 73
arCOG00985 TIGR03684
arCOG04150 universal archaeal PUA-domain protein; This universal archaeal protein contains a ...
 14-177 2.67e-14

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: 70.33  E-value: 2.67e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015  14 MKGSDRRKLRADIatafpslsaEQLSQLLPNKEELNVVKIyahkgDSVTLYVLHKNPLFFEMEKRLFPTVYMLWLYPDLL 93
Cdd:TIGR03684   4 LSKKEIKELLEEL---------KEYYGIDIEKAKLEVAET-----DKFEIYLVDGKPLLFEVDGRLFPTLYGLLELNPDK 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015  94 PTFTMWPPVLQKLIGGADLMLPGVVvpsSGLPDVKQGECCSVTVVNNRAPVAVGTATVSSAEMhSAGMKGKGVCVLHTYM 173
Cdd:TIGR03684  70 NVVVVDEGAVKFIINGADIMAPGIV---EADPSIKEGDIVFVVDETHGKPLAVGIALMDAEEM-VEEKKGKAVKNIHHVG 145


                  ....
gi 1910492015 174 DHLW 177
Cdd:TIGR03684 146 DKIW 149
Tma20 COG2016
Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ...
 7-177 7.31e-14

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: 69.43  E-value: 7.31e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015   7 RVKSNTVMKGSDRRKLRADIATAFPslsaeqlsqLLPNKEELNVVKIyahkgDSVTLYVLHKNPLFFEMEKRLFPTVYML 86
Cdd:COG2016     1 KVMKRHHLSKKEIKELLEELEERLG---------VDLSGDNVEVAET-----DDFEIYLVDGEPLLFKVDDEPFPTLRGL 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015  87 WLYPDLLPTFTmwppV----LQKLIGGADLMLPGVVvpsSGLPDVKQGECCSVTVVNNRAPVAVGTATVSSAEMhSAGMK 162
Cdd:COG2016    67 LKYPPEKPVVT----VdmgaVKFVSNGADVMRPGIV---EADGEIKEGDIVVIVEEKHGKPLAVGRALVDGEEM-VEGKK 138

                         170
                  ....*....|....*
gi 1910492015 163 GKGVCVLHTYMDHLW 177
Cdd:COG2016   139 GKAVKNLHHVGDKLW 153
PRK14560 PRK14560
putative RNA-binding protein; Provisional
 7-177 8.04e-12

putative RNA-binding protein; Provisional


Pssm-ID: 237757 [Multi-domain]  Cd Length: 160  Bit Score: 63.72  E-value: 8.04e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015   7 RVKSNTVMKGSDRRKLRadiatafpslsaEQLSQLLPNKEELNVVKIYAHKGDSVTLYVLHKNPLFFEMEKRLFPTVYML 86
Cdd:PRK14560    2 EVKSRHHLSKKEVKEIK------------EELKEKFGVDIDGKDAVEEVETDKKEEIYLVDGEPLFFKVDDELFPTLRGA 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015  87 WLYPDLLPTFTMWPPVLQKLIGGADLMLPGVVvpsSGLPDVKQGECCSVTVVNNRAPVAVGTATVSSAEMhSAGMKGKGV 166
Cdd:PRK14560   70 LKLKPEKRRVVVDAGAVKFVSNGADVMAPGIV---EADEDIKEGDIVFVVEETHGKPLAVGRALMDGDEM-VEEKKGKAV 145

                         170
                  ....*....|.
gi 1910492015 167 CVLHTYMDHLW 177
Cdd:PRK14560  146 KNIHHVGDEIW 156
PUA smart00359
Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;
104-173 1.49e-05

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


Pssm-ID: 214635 [Multi-domain]  Cd Length: 76  Bit Score: 43.40  E-value: 1.49e-05
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1910492015  104 QKLIGGADLMLPGVVVPSsglPDVKQGECcsVTVVN-NRAPVAVGTATVSSAEMHSAGMKGKGVCVLHTYM 173
Cdd:smart00359  11 KAILNGASLLAPGVVRVD---GDIKEGDV--VVIVDeKGEPLGIGLANMSSEEIARIKGKGLAVKVRRAVM 76
PUA pfam01472
PUA domain; The PUA domain named after Pseudouridine synthase and Archaeosine transglycosylase, ...
 104-170 1.46e-03

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: 37.46  E-value: 1.46e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1910492015 104 QKLIGGADLMLPGVVVPSsglPDVKQGECcsVTVVN-NRAPVAVGTATVSSAEMHSAgMKGKGVCVLH 170
Cdd:pfam01472  11 KAILNGASLLAPGVVRVD---GDFRKGDE--VVVVTeKGELVAVGLANYSSEELAKI-EGGKAVKVRR 72
 
Name Accession Description Interval E-value
PUA_eIF2d-like cd21156
PUA RNA-binding domain of eukaryotic translation initiation factor 2D and similar proteins; ...
 92-172 2.80e-40

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: 141.16  E-value: 2.80e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015  92 LLPTFTMWPPVLQKLIGGADLMLPGVVVPSSGLPDVKQGECCSVTVVNNRAPVAVGTATVSSAEMHSAGMKGKGVCVLHT 171
Cdd:cd21156     1 LLPVFTTHPPVSEKLLGGADLMLPGVIVPPPGLPPFEKGSLVAVAVLGNPAPVAVGRAAMSSEDMYASGMKGKGVEVLHT 80


                  .
gi 1910492015 172 Y 172
Cdd:cd21156    81 Y 81
eIF2D_C cd11608
C-terminal domain of eIF2D and related proteins; eIF2D translation initiation factor (also ...
 496-580 8.90e-33

C-terminal domain of eIF2D and related proteins; 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: 211321  Cd Length: 85  Bit Score: 120.75  E-value: 8.90e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015 496 PIDISVANRGSNKKVTLIKNLEVYGLDPAVVATALQHRVQASSVLQPIPGAKDKVLVQIQGNQIQRVGNLLLDHYQIPLK 575
Cdd:cd11608     1 PIDITTERRQGNKKVTLISGLESFGIDPEEFAKELQKKCAASTSVSPLPGKKKGVEVQVQGNQVKFVAKLLTEKYGVPKK 80


                  ....*
gi 1910492015 576 YIQGL 580
Cdd:cd11608    81 YIDGL 85
Pre-PUA pfam17832
Pre-PUA-like domain; This Pre-PUA-like domain is found in a wide variety of proteins including ...
 2-90 5.26e-32

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: 118.44  E-value: 5.26e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015   2 FAKPFRVKSNTVMKGSDRRKLRADIATAFPSLSaEQLSQLLPNKEELNVVKIYahkGDSVTLYVLHKNPLFFE-MEKRLF 80
Cdd:pfam17832   1 FKKPFKVKSNTQLKSSDRRKLRAKLLEQFPSLE-EQLDELLPKKEEVIVIKLH---TEHVSLYSVDGEPLFFQvRDGPLY 76

                          90
                  ....*....|
gi 1910492015  81 PTVYMLWLYP 90
Cdd:pfam17832  77 PTLYLLWKYP 86
eIF2D_N cd11610
N-terminal domain of eIF2D and related proteins; This N-terminal domain of eIF2D co-occurs ...
 6-81 3.42e-30

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: 113.14  E-value: 3.42e-30
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1910492015   6 FRVKSNTVMKGSDRRKLRADIATAFPSLSAEQLSQLLPNKEELNVVKIYAHkGDSVTLYVLHKNPLFFEME-KRLFP 81
Cdd:cd11610     1 FRVKSNTALKGSDRKKLRARVLKAFPLLTEEDLDELVPNKEELSVVKLVTH-GERVTVYSVDGVPLFFELSdGNLYP 76
SUI1 pfam01253
Translation initiation factor SUI1;
494-569 1.84e-14

Translation initiation factor SUI1;


Pssm-ID: 460137  Cd Length: 75  Bit Score: 68.62  E-value: 1.84e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1910492015 494 IEPIDISVANRGSNKKVTLIKNLEVYGLDPAVVATALQHRVQASSVLQPIPGakdKVLVQIQGNQIQRVGNLLLDH 569
Cdd:pfam01253   1 QPKIHIRVEQRGGRKTVTTVSGLEPFGIDLKKLAKELKKKFACGGTVVKDGG---GEEIQVQGDQRDKVAELLTEK 73
arCOG00985 TIGR03684
arCOG04150 universal archaeal PUA-domain protein; This universal archaeal protein contains a ...
 14-177 2.67e-14

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: 70.33  E-value: 2.67e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015  14 MKGSDRRKLRADIatafpslsaEQLSQLLPNKEELNVVKIyahkgDSVTLYVLHKNPLFFEMEKRLFPTVYMLWLYPDLL 93
Cdd:TIGR03684   4 LSKKEIKELLEEL---------KEYYGIDIEKAKLEVAET-----DKFEIYLVDGKPLLFEVDGRLFPTLYGLLELNPDK 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015  94 PTFTMWPPVLQKLIGGADLMLPGVVvpsSGLPDVKQGECCSVTVVNNRAPVAVGTATVSSAEMhSAGMKGKGVCVLHTYM 173
Cdd:TIGR03684  70 NVVVVDEGAVKFIINGADIMAPGIV---EADPSIKEGDIVFVVDETHGKPLAVGIALMDAEEM-VEEKKGKAVKNIHHVG 145


                  ....
gi 1910492015 174 DHLW 177
Cdd:TIGR03684 146 DKIW 149
Tma20 COG2016
Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ...
 7-177 7.31e-14

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: 69.43  E-value: 7.31e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015   7 RVKSNTVMKGSDRRKLRADIATAFPslsaeqlsqLLPNKEELNVVKIyahkgDSVTLYVLHKNPLFFEMEKRLFPTVYML 86
Cdd:COG2016     1 KVMKRHHLSKKEIKELLEELEERLG---------VDLSGDNVEVAET-----DDFEIYLVDGEPLLFKVDDEPFPTLRGL 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015  87 WLYPDLLPTFTmwppV----LQKLIGGADLMLPGVVvpsSGLPDVKQGECCSVTVVNNRAPVAVGTATVSSAEMhSAGMK 162
Cdd:COG2016    67 LKYPPEKPVVT----VdmgaVKFVSNGADVMRPGIV---EADGEIKEGDIVVIVEEKHGKPLAVGRALVDGEEM-VEGKK 138

                         170
                  ....*....|....*
gi 1910492015 163 GKGVCVLHTYMDHLW 177
Cdd:COG2016   139 GKAVKNLHHVGDKLW 153
PRK14560 PRK14560
putative RNA-binding protein; Provisional
 7-177 8.04e-12

putative RNA-binding protein; Provisional


Pssm-ID: 237757 [Multi-domain]  Cd Length: 160  Bit Score: 63.72  E-value: 8.04e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015   7 RVKSNTVMKGSDRRKLRadiatafpslsaEQLSQLLPNKEELNVVKIYAHKGDSVTLYVLHKNPLFFEMEKRLFPTVYML 86
Cdd:PRK14560    2 EVKSRHHLSKKEVKEIK------------EELKEKFGVDIDGKDAVEEVETDKKEEIYLVDGEPLFFKVDDELFPTLRGA 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015  87 WLYPDLLPTFTMWPPVLQKLIGGADLMLPGVVvpsSGLPDVKQGECCSVTVVNNRAPVAVGTATVSSAEMhSAGMKGKGV 166
Cdd:PRK14560   70 LKLKPEKRRVVVDAGAVKFVSNGADVMAPGIV---EADEDIKEGDIVFVVEETHGKPLAVGRALMDGDEM-VEEKKGKAV 145

                         170
                  ....*....|.
gi 1910492015 167 CVLHTYMDHLW 177
Cdd:PRK14560  146 KNIHHVGDEIW 156
PUA cd07953
PUA RNA binding domain; The PUA (PseudoUridine synthase and Archaeosine transglycosylase) ...
 94-171 1.55e-11

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: 60.00  E-value: 1.55e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1910492015  94 PTFTMWPPVLQKLIGGADLMLPGVVvpsSGLPDVKQGECCSVTVVNNRaPVAVGTATVSSAEMHSAGmKGKGVCVLHT 171
Cdd:cd07953     1 PVVVVDKGAEKAVLNGADLMAPGVV---SADGDFKRGDLVRIVSEGGR-PLAIGVAEMSSDEMKEEL-KGIAVRVLHF 73
unchar_dom_2 TIGR00451
uncharacterized domain 2; This uncharacterized domain is found a number of enzymes and ...
 64-170 2.40e-11

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: 60.52  E-value: 2.40e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015  64 YVLHKNPLFFEMEKRLFPTVYMLWLYPDLLPTFTMWPPVLQKLIGGADLMLPGVVvpsSGLPDVKQGECCSVTVVNNRAP 143
Cdd:TIGR00451   1 ILVDGEPLYFIYDDKVIPSLKGALKLMEDKKIVVVDNGAVKFLKNGADVMRPGIV---DADEDIKEGDDVVVVDENKDRP 77

                          90       100
                  ....*....|....*....|....*..
gi 1910492015 144 VAVGTATVSSAEMHSAGmKGKGVCVLH 170
Cdd:TIGR00451  78 LAVGIALMSGEEMKEMD-KGKAVKNIH 103
MCT1_N cd11609
N-terminal domain of multiple copies T cell malignancies 1 and related proteins; This ...
 1-75 1.28e-09

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: 54.85  E-value: 1.28e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1910492015   1 MFAKPFRVKSNTVMKGSDRRKLRADIATAFPSLsAEQLSQLLPNKEELNVVKIYAHkgdsVTLYVLHKNPLFFEM 75
Cdd:cd11609     1 KFFEKEDVSGQTQLKSSVQRGIRAKLLEQYPLL-EPYIDEILPKKEPLVLVKCHDH----IELLVVNGEPLFFQH 70
PUA_MJ1432-like cd21154
PUA RNA-binding domain of MJ1432, TA1423, PH0734, and similar proteins; The RNA-binding PUA ...
 106-179 1.36e-09

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: 54.82  E-value: 1.36e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1910492015 106 LIGGADLMLPGVVVPSsglPDVKQGECCSVTVVNNRAPVAVGTATVSSAEMhSAGMKGKGVCVLHTYMDHLWAL 179
Cdd:cd21154    15 VANGADVMRPGIVEAD---EEIKKGDIVVVVDERHGKPLAVGIALMSGEEM-VEMKKGKAVKNLHYVGDKIWKL 84
PUA_MCTS-1-like cd21155
PUA RNA-binding domain of malignant T cell-amplified sequence 1 and related proteins; The ...
 81-177 1.08e-07

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: 49.79  E-value: 1.08e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1910492015  81 PTVYMLWLYPDLLPTFTMWPPVLQKLIGGADLMLPGVVVPSSGLPD-VKQGECCSVTVVNNRAPVAVGTATVSSAEMHSA 159
Cdd:cd21155     1 PTLRLLHKYPFMLPKVQVDKGAIKFVLSGANIMCPGLTSPGGKLPDdVEKGTVVAIMAEGKEHALAIGITKMSSEDIKKV 80

                          90
                  ....*....|....*...
gi 1910492015 160 GmKGKGVCVLHTYMDHLW 177
Cdd:cd21155    81 N-KGIGIENIHYLGDGLW 97
eIF2D_N_like cd11580
N-terminal domain of eIF2D, malignant T cell-amplified sequence 1 and related proteins; This ...
 8-81 8.37e-06

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: 43.88  E-value: 8.37e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1910492015   8 VKSNTVMKGSDRRKLRADIATAFPsLSAEQLSQLLPNKEELNVVKIYAHkgdsVTLYVLHKNPLFFEMEK-RLFP 81
Cdd:cd11580     3 LKNKTQLSKKDVKKLREQLIEQFP-LLEEILDEIFPKKAPVKVQKFDTH----YEIYTVDGEPVFFELDEgEVFP 72
PUA smart00359
Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;
104-173 1.49e-05

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


Pssm-ID: 214635 [Multi-domain]  Cd Length: 76  Bit Score: 43.40  E-value: 1.49e-05
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1910492015  104 QKLIGGADLMLPGVVVPSsglPDVKQGECcsVTVVN-NRAPVAVGTATVSSAEMHSAGMKGKGVCVLHTYM 173
Cdd:smart00359  11 KAILNGASLLAPGVVRVD---GDIKEGDV--VVIVDeKGEPLGIGLANMSSEEIARIKGKGLAVKVRRAVM 76
PUA pfam01472
PUA domain; The PUA domain named after Pseudouridine synthase and Archaeosine transglycosylase, ...
 104-170 1.46e-03

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: 37.46  E-value: 1.46e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1910492015 104 QKLIGGADLMLPGVVVPSsglPDVKQGECcsVTVVN-NRAPVAVGTATVSSAEMHSAgMKGKGVCVLH 170
Cdd:pfam01472  11 KAILNGASLLAPGVVRVD---GDFRKGDE--VVVVTeKGELVAVGLANYSSEELAKI-EGGKAVKVRR 72
 
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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