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Conserved domains on  [gi|56699485|ref|NP_008824|]
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eukaryotic translation initiation factor 2D isoform 1 [Homo sapiens]

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; ...
 92-173 4.80e-42

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: 145.79  E-value: 4.80e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485  92 LLPTFTTWPLVLEKLVGGADLMLPGLVMPPAGLPQVQKGDLCAISLVGNRAPVAIGVAAMSTAEMLTSGLKGRGFSVLHT 171
Cdd:cd21156   1 LLPVFTTHPPVSEKLLGGADLMLPGVIVPPPGLPPFEKGSLVAVAVLGNPAPVAVGRAAMSSEDMYASGMKGKGVEVLHT 80


                ..
gi 56699485 172 YQ 173
Cdd:cd21156  81 YG 82
eIF2D_C cd11608
C-terminal domain of eIF2D and related proteins; eIF2D translation initiation factor (also ...
 490-574 7.21e-38

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: 134.61  E-value: 7.21e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485 490 PIDITLAQRASNKKVTVVRNLEAYGLDPYSVAAILQQRCQASTTVNPAPGAKDSLQVQIQGNQVHHLGWLLLEEYQLPRK 569
Cdd:cd11608   1 PIDITTERRQGNKKVTLISGLESFGIDPEEFAKELQKKCAASTSVSPLPGKKKGVEVQVQGNQVKFVAKLLTEKYGVPKK 80


                ....*
gi 56699485 570 HIQGL 574
Cdd:cd11608  81 YIDGL 85
eIF2D_N cd11610
N-terminal domain of eIF2D and related proteins; This N-terminal domain of eIF2D co-occurs ...
 6-81 5.84e-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: 112.37  E-value: 5.84e-30
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 56699485   6 FRVKSNTAIKGSDRRKLRADVTTAFPTLGTDQVSELVPGKEELNIVKLYAHkGDAVTVYVSGGNPILFELE-KNLYP 81
Cdd:cd11610   1 FRVKSNTALKGSDRKKLRARVLKAFPLLTEEDLDELVPNKEELSVVKLVTH-GERVTVYSVDGVPLFFELSdGNLYP 76
 
Name Accession Description Interval E-value
PUA_eIF2d-like cd21156
PUA RNA-binding domain of eukaryotic translation initiation factor 2D and similar proteins; ...
 92-173 4.80e-42

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: 145.79  E-value: 4.80e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485  92 LLPTFTTWPLVLEKLVGGADLMLPGLVMPPAGLPQVQKGDLCAISLVGNRAPVAIGVAAMSTAEMLTSGLKGRGFSVLHT 171
Cdd:cd21156   1 LLPVFTTHPPVSEKLLGGADLMLPGVIVPPPGLPPFEKGSLVAVAVLGNPAPVAVGRAAMSSEDMYASGMKGKGVEVLHT 80


                ..
gi 56699485 172 YQ 173
Cdd:cd21156  81 YG 82
eIF2D_C cd11608
C-terminal domain of eIF2D and related proteins; eIF2D translation initiation factor (also ...
 490-574 7.21e-38

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: 134.61  E-value: 7.21e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485 490 PIDITLAQRASNKKVTVVRNLEAYGLDPYSVAAILQQRCQASTTVNPAPGAKDSLQVQIQGNQVHHLGWLLLEEYQLPRK 569
Cdd:cd11608   1 PIDITTERRQGNKKVTLISGLESFGIDPEEFAKELQKKCAASTSVSPLPGKKKGVEVQVQGNQVKFVAKLLTEKYGVPKK 80


                ....*
gi 56699485 570 HIQGL 574
Cdd:cd11608  81 YIDGL 85
eIF2D_N cd11610
N-terminal domain of eIF2D and related proteins; This N-terminal domain of eIF2D co-occurs ...
 6-81 5.84e-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: 112.37  E-value: 5.84e-30
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 56699485   6 FRVKSNTAIKGSDRRKLRADVTTAFPTLGTDQVSELVPGKEELNIVKLYAHkGDAVTVYVSGGNPILFELE-KNLYP 81
Cdd:cd11610   1 FRVKSNTALKGSDRKKLRARVLKAFPLLTEEDLDELVPNKEELSVVKLVTH-GERVTVYSVDGVPLFFELSdGNLYP 76
Pre-PUA pfam17832
Pre-PUA-like domain; This Pre-PUA-like domain is found in a wide variety of proteins including ...
 2-90 8.85e-30

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: 112.28  E-value: 8.85e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485     2 FAKAFRVKSNTAIKGSDRRKLRADVTTAFPTLgTDQVSELVPGKEELNIVKLYAHKgdaVTVYVSGGNPILFEL-EKNLY 80
Cdd:pfam17832   1 FKKPFKVKSNTQLKSSDRRKLRAKLLEQFPSL-EEQLDELLPKKEEVIVIKLHTEH---VSLYSVDGEPLFFQVrDGPLY 76

                          90
                  ....*....|
gi 56699485    81 PTVYTLWSYP 90
Cdd:pfam17832  77 PTLYLLWKYP 86
SUI1 pfam01253
Translation initiation factor SUI1;
490-563 3.35e-17

Translation initiation factor SUI1;


Pssm-ID: 460137  Cd Length: 75  Bit Score: 76.32  E-value: 3.35e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 56699485   490 PIDITLAQRASNKKVTVVRNLEAYGLDPYSVAAILQQRCQASTTVNPAPGAKdslQVQIQGNQVHHLGWLLLEE 563
Cdd:pfam01253   3 KIHIRVEQRGGRKTVTTVSGLEPFGIDLKKLAKELKKKFACGGTVVKDGGGE---EIQVQGDQRDKVAELLTEK 73
Tma20 COG2016
Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ...
 7-178 5.11e-13

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: 66.73  E-value: 5.11e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485   7 RVKSNTAIKGSDRRKLRADVTTAFptlgtdqvsELVPGKEELNIVKLyahkgDAVTVYVSGGNPILFELEKNLYPTVYTL 86
Cdd:COG2016   1 KVMKRHHLSKKEIKELLEELEERL---------GVDLSGDNVEVAET-----DDFEIYLVDGEPLLFKVDDEPFPTLRGL 66

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485  87 WSYPDLLPTFTtwplV----LEKLVGGADLMLPGLVmpPAGlPQVQKGDLCAISLVGNRAPVAIGVAAMSTAEMLTSGlK 162
Cdd:COG2016  67 LKYPPEKPVVT----VdmgaVKFVSNGADVMRPGIV--EAD-GEIKEGDIVVIVEEKHGKPLAVGRALVDGEEMVEGK-K 138

                       170
                ....*....|....*.
gi 56699485 163 GRGFSVLHTYQDHLWR 178
Cdd:COG2016 139 GKAVKNLHHVGDKLWE 154
PRK14560 PRK14560
putative RNA-binding protein; Provisional
 7-178 1.63e-09

putative RNA-binding protein; Provisional


Pssm-ID: 237757 [Multi-domain]  Cd Length: 160  Bit Score: 56.78  E-value: 1.63e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485    7 RVKSNTAIKGSDRRKLRADVTTAFPTLGTDQVSELVPGKEELnivklyahkgdaVTVYVSGGNPILFELEKNLYPTVYTL 86
Cdd:PRK14560   2 EVKSRHHLSKKEVKEIKEELKEKFGVDIDGKDAVEEVETDKK------------EEIYLVDGEPLFFKVDDELFPTLRGA 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485   87 WSYPDLLPTFTTWPLVLEKLVGGADLMLPGLVmppAGLPQVQKGDLCAISLVGNRAPVAIGVAAMSTAEMLtSGLKGRGF 166
Cdd:PRK14560  70 LKLKPEKRRVVVDAGAVKFVSNGADVMAPGIV---EADEDIKEGDIVFVVEETHGKPLAVGRALMDGDEMV-EEKKGKAV 145

                        170
                 ....*....|..
gi 56699485  167 SVLHTYQDHLWR 178
Cdd:PRK14560 146 KNIHHVGDEIWE 157
unchar_dom_2 TIGR00451
uncharacterized domain 2; This uncharacterized domain is found a number of enzymes and ...
 68-174 4.71e-09

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: 53.98  E-value: 4.71e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485    68 GNPILFELEKNLYPTVYTLWSYPDLLPTFTTWPLVLEKLVGGADLMLPGLVmpPAGlPQVQKGDLCAISLVGNRAPVAIG 147
Cdd:TIGR00451   5 GEPLYFIYDDKVIPSLKGALKLMEDKKIVVVDNGAVKFLKNGADVMRPGIV--DAD-EDIKEGDDVVVVDENKDRPLAVG 81

                          90       100
                  ....*....|....*....|....*..
gi 56699485   148 VAAMSTAEMLTSGlKGRGFSVLHTYQD 174
Cdd:TIGR00451  82 IALMSGEEMKEMD-KGKAVKNIHHIGD 107
PUA smart00359
Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;
104-175 1.76e-06

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


Pssm-ID: 214635 [Multi-domain]  Cd Length: 76  Bit Score: 45.71  E-value: 1.76e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 56699485    104 EKLVGGADLMLPGLVMPPAGlpqVQKGDLCAIsLVGNRAPVAIGVAAMSTAEMLTsgLKGRGFSVLHTYQDH 175
Cdd:smart00359  11 KAILNGASLLAPGVVRVDGD---IKEGDVVVI-VDEKGEPLGIGLANMSSEEIAR--IKGKGLAVKVRRAVM 76
PUA pfam01472
PUA domain; The PUA domain named after Pseudouridine synthase and Archaeosine transglycosylase, ...
 104-156 4.17e-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: 36.31  E-value: 4.17e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 56699485   104 EKLVGGADLMLPGLVmppAGLPQVQKGDLCAIsLVGNRAPVAIGVAAMSTAEM 156
Cdd:pfam01472  11 KAILNGASLLAPGVV---RVDGDFRKGDEVVV-VTEKGELVAVGLANYSSEEL 59
 
Name Accession Description Interval E-value
PUA_eIF2d-like cd21156
PUA RNA-binding domain of eukaryotic translation initiation factor 2D and similar proteins; ...
 92-173 4.80e-42

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: 145.79  E-value: 4.80e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485  92 LLPTFTTWPLVLEKLVGGADLMLPGLVMPPAGLPQVQKGDLCAISLVGNRAPVAIGVAAMSTAEMLTSGLKGRGFSVLHT 171
Cdd:cd21156   1 LLPVFTTHPPVSEKLLGGADLMLPGVIVPPPGLPPFEKGSLVAVAVLGNPAPVAVGRAAMSSEDMYASGMKGKGVEVLHT 80


                ..
gi 56699485 172 YQ 173
Cdd:cd21156  81 YG 82
eIF2D_C cd11608
C-terminal domain of eIF2D and related proteins; eIF2D translation initiation factor (also ...
 490-574 7.21e-38

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: 134.61  E-value: 7.21e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485 490 PIDITLAQRASNKKVTVVRNLEAYGLDPYSVAAILQQRCQASTTVNPAPGAKDSLQVQIQGNQVHHLGWLLLEEYQLPRK 569
Cdd:cd11608   1 PIDITTERRQGNKKVTLISGLESFGIDPEEFAKELQKKCAASTSVSPLPGKKKGVEVQVQGNQVKFVAKLLTEKYGVPKK 80


                ....*
gi 56699485 570 HIQGL 574
Cdd:cd11608  81 YIDGL 85
eIF2D_N cd11610
N-terminal domain of eIF2D and related proteins; This N-terminal domain of eIF2D co-occurs ...
 6-81 5.84e-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: 112.37  E-value: 5.84e-30
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 56699485   6 FRVKSNTAIKGSDRRKLRADVTTAFPTLGTDQVSELVPGKEELNIVKLYAHkGDAVTVYVSGGNPILFELE-KNLYP 81
Cdd:cd11610   1 FRVKSNTALKGSDRKKLRARVLKAFPLLTEEDLDELVPNKEELSVVKLVTH-GERVTVYSVDGVPLFFELSdGNLYP 76
Pre-PUA pfam17832
Pre-PUA-like domain; This Pre-PUA-like domain is found in a wide variety of proteins including ...
 2-90 8.85e-30

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: 112.28  E-value: 8.85e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485     2 FAKAFRVKSNTAIKGSDRRKLRADVTTAFPTLgTDQVSELVPGKEELNIVKLYAHKgdaVTVYVSGGNPILFEL-EKNLY 80
Cdd:pfam17832   1 FKKPFKVKSNTQLKSSDRRKLRAKLLEQFPSL-EEQLDELLPKKEEVIVIKLHTEH---VSLYSVDGEPLFFQVrDGPLY 76

                          90
                  ....*....|
gi 56699485    81 PTVYTLWSYP 90
Cdd:pfam17832  77 PTLYLLWKYP 86
SUI1 pfam01253
Translation initiation factor SUI1;
490-563 3.35e-17

Translation initiation factor SUI1;


Pssm-ID: 460137  Cd Length: 75  Bit Score: 76.32  E-value: 3.35e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 56699485   490 PIDITLAQRASNKKVTVVRNLEAYGLDPYSVAAILQQRCQASTTVNPAPGAKdslQVQIQGNQVHHLGWLLLEE 563
Cdd:pfam01253   3 KIHIRVEQRGGRKTVTTVSGLEPFGIDLKKLAKELKKKFACGGTVVKDGGGE---EIQVQGDQRDKVAELLTEK 73
PUA cd07953
PUA RNA binding domain; The PUA (PseudoUridine synthase and Archaeosine transglycosylase) ...
 94-171 7.50e-15

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: 69.63  E-value: 7.50e-15
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 56699485  94 PTFTTWPLVLEKLVGGADLMLPGLVMPPaglPQVQKGDLCAISLVGNRaPVAIGVAAMSTAEMLtSGLKGRGFSVLHT 171
Cdd:cd07953   1 PVVVVDKGAEKAVLNGADLMAPGVVSAD---GDFKRGDLVRIVSEGGR-PLAIGVAEMSSDEMK-EELKGIAVRVLHF 73
Tma20 COG2016
Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ...
 7-178 5.11e-13

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: 66.73  E-value: 5.11e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485   7 RVKSNTAIKGSDRRKLRADVTTAFptlgtdqvsELVPGKEELNIVKLyahkgDAVTVYVSGGNPILFELEKNLYPTVYTL 86
Cdd:COG2016   1 KVMKRHHLSKKEIKELLEELEERL---------GVDLSGDNVEVAET-----DDFEIYLVDGEPLLFKVDDEPFPTLRGL 66

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485  87 WSYPDLLPTFTtwplV----LEKLVGGADLMLPGLVmpPAGlPQVQKGDLCAISLVGNRAPVAIGVAAMSTAEMLTSGlK 162
Cdd:COG2016  67 LKYPPEKPVVT----VdmgaVKFVSNGADVMRPGIV--EAD-GEIKEGDIVVIVEEKHGKPLAVGRALVDGEEMVEGK-K 138

                       170
                ....*....|....*.
gi 56699485 163 GRGFSVLHTYQDHLWR 178
Cdd:COG2016 139 GKAVKNLHHVGDKLWE 154
PUA_MCTS-1-like cd21155
PUA RNA-binding domain of malignant T cell-amplified sequence 1 and related proteins; The ...
 81-177 3.01e-12

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: 62.89  E-value: 3.01e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485  81 PTVYTLWSYPDLLPTFTT----WPLVLeklvGGADLMLPGLVMPPAGLPQ-VQKGDLCAISLVGNRAPVAIGVAAMSTAE 155
Cdd:cd21155   1 PTLRLLHKYPFMLPKVQVdkgaIKFVL----SGANIMCPGLTSPGGKLPDdVEKGTVVAIMAEGKEHALAIGITKMSSED 76

                        90       100
                ....*....|....*....|..
gi 56699485 156 MLTSGlKGRGFSVLHTYQDHLW 177
Cdd:cd21155  77 IKKVN-KGIGIENIHYLGDGLW 97
PUA_MJ1432-like cd21154
PUA RNA-binding domain of MJ1432, TA1423, PH0734, and similar proteins; The RNA-binding PUA ...
 109-178 5.43e-10

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: 55.97  E-value: 5.43e-10
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485 109 GADLMLPGLVMPPaglPQVQKGDLCAISLVGNRAPVAIGVAAMSTAEMLTSGlKGRGFSVLHTYQDHLWR 178
Cdd:cd21154  18 GADVMRPGIVEAD---EEIKKGDIVVVVDERHGKPLAVGIALMSGEEMVEMK-KGKAVKNLHYVGDKIWK 83
PRK14560 PRK14560
putative RNA-binding protein; Provisional
 7-178 1.63e-09

putative RNA-binding protein; Provisional


Pssm-ID: 237757 [Multi-domain]  Cd Length: 160  Bit Score: 56.78  E-value: 1.63e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485    7 RVKSNTAIKGSDRRKLRADVTTAFPTLGTDQVSELVPGKEELnivklyahkgdaVTVYVSGGNPILFELEKNLYPTVYTL 86
Cdd:PRK14560   2 EVKSRHHLSKKEVKEIKEELKEKFGVDIDGKDAVEEVETDKK------------EEIYLVDGEPLFFKVDDELFPTLRGA 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485   87 WSYPDLLPTFTTWPLVLEKLVGGADLMLPGLVmppAGLPQVQKGDLCAISLVGNRAPVAIGVAAMSTAEMLtSGLKGRGF 166
Cdd:PRK14560  70 LKLKPEKRRVVVDAGAVKFVSNGADVMAPGIV---EADEDIKEGDIVFVVEETHGKPLAVGRALMDGDEMV-EEKKGKAV 145

                        170
                 ....*....|..
gi 56699485  167 SVLHTYQDHLWR 178
Cdd:PRK14560 146 KNIHHVGDEIWE 157
unchar_dom_2 TIGR00451
uncharacterized domain 2; This uncharacterized domain is found a number of enzymes and ...
 68-174 4.71e-09

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: 53.98  E-value: 4.71e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485    68 GNPILFELEKNLYPTVYTLWSYPDLLPTFTTWPLVLEKLVGGADLMLPGLVmpPAGlPQVQKGDLCAISLVGNRAPVAIG 147
Cdd:TIGR00451   5 GEPLYFIYDDKVIPSLKGALKLMEDKKIVVVDNGAVKFLKNGADVMRPGIV--DAD-EDIKEGDDVVVVDENKDRPLAVG 81

                          90       100
                  ....*....|....*....|....*..
gi 56699485   148 VAAMSTAEMLTSGlKGRGFSVLHTYQD 174
Cdd:TIGR00451  82 IALMSGEEMKEMD-KGKAVKNIHHIGD 107
MCT1_N cd11609
N-terminal domain of multiple copies T cell malignancies 1 and related proteins; This ...
 1-73 1.25e-06

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: 46.37  E-value: 1.25e-06
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 56699485   1 MFAKAFRVKSNTAIKGSDRRKLRADVTTAFPTLgTDQVSELVPGKEELNIVKLYAHkgdaVTVYVSGGNPILF 73
Cdd:cd11609   1 KFFEKEDVSGQTQLKSSVQRGIRAKLLEQYPLL-EPYIDEILPKKEPLVLVKCHDH----IELLVVNGEPLFF 68
PUA smart00359
Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;
104-175 1.76e-06

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


Pssm-ID: 214635 [Multi-domain]  Cd Length: 76  Bit Score: 45.71  E-value: 1.76e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 56699485    104 EKLVGGADLMLPGLVMPPAGlpqVQKGDLCAIsLVGNRAPVAIGVAAMSTAEMLTsgLKGRGFSVLHTYQDH 175
Cdd:smart00359  11 KAILNGASLLAPGVVRVDGD---IKEGDVVVI-VDEKGEPLGIGLANMSSEEIAR--IKGKGLAVKVRRAVM 76
eIF2D_N_like cd11580
N-terminal domain of eIF2D, malignant T cell-amplified sequence 1 and related proteins; This ...
 8-81 1.74e-05

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: 43.11  E-value: 1.74e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 56699485   8 VKSNTAIKGSDRRKLRADVTTAFPtLGTDQVSELVPGKEELNIVKLYAHkgdaVTVYVSGGNPILFELEKN-LYP 81
Cdd:cd11580   3 LKNKTQLSKKDVKKLREQLIEQFP-LLEEILDEIFPKKAPVKVQKFDTH----YEIYTVDGEPVFFELDEGeVFP 72
DENR_C cd11607
C-terminal domain of DENR and related proteins; DENR (density regulated protein), together ...
 491-571 2.66e-05

C-terminal domain of DENR and related proteins; DENR (density regulated protein), together with MCT-1 (multiple copies T cell malignancies), 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: 211320  Cd Length: 86  Bit Score: 42.93  E-value: 2.66e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56699485 491 IDITLAQRASNKKVTVVRNLEAYGLDPYSVAAILQQRCQASTTVNPAPGAKDslQVQIQGNQVHHLGWLLLEEY-QLPRK 569
Cdd:cd11607   3 VTIKRISRNKRKFVTTVTGLETFGIDLKKAAKLFAKKFACGASVTKGAEGKD--EIVIQGDVTDDIVDLILEKWpEIDED 80


                ..
gi 56699485 570 HI 571
Cdd:cd11607  81 NI 82
PUA_Cbf5 cd21148
PUA RNA-binding domain of the archaeal pseudouridine synthase component Cbf5; The RNA-binding ...
 109-158 4.25e-05

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: 42.07  E-value: 4.25e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|
gi 56699485 109 GADLMLPGLVMPPAGlpqVQKGDLCAISLVGNRApVAIGVAAMSTAEMLT 158
Cdd:cd21148  18 GAKLAIPGVLRYEDG---IEKGDEVVIMTTKGEA-VALGIALMTTAEIAT 63
eIF1_SUI1_like cd00474
Eukaryotic initiation factor 1 and related proteins; Members of the eIF1/SUI1 (eukaryotic ...
 491-564 5.29e-05

Eukaryotic initiation factor 1 and related proteins; Members of the eIF1/SUI1 (eukaryotic initiation factor 1) family are found in eukaryotes, archaea, and some bacteria; eukaryotic members are understood to play an important role in accurate initiator codon recognition during translation initiation. eIF1 interacts with 18S rRNA in the 40S ribosomal subunit during eukaryotic translation initiation. Point mutations in the yeast eIF1 implicate the protein in maintaining accurate start-site selection but its mechanism of action is unknown. The function of non-eukaryotic family members is also unclear.


Pssm-ID: 211317  Cd Length: 78  Bit Score: 41.64  E-value: 5.29e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 56699485 491 IDITLAQRASNKKVTVVRNLEAYgLDPYSVAAILQQRCQASTTVNPapgakDSLQVQIQGNQVHHLGWLLLEEY 564
Cdd:cd00474   2 IHIKVEQRSGGKKVTKVEGLPAY-IDLRKLADELKKKLGCGGSVEG-----EKMEIEIQGDHTDQIIVALEEKG 69
PUA pfam01472
PUA domain; The PUA domain named after Pseudouridine synthase and Archaeosine transglycosylase, ...
 104-156 4.17e-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: 36.31  E-value: 4.17e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 56699485   104 EKLVGGADLMLPGLVmppAGLPQVQKGDLCAIsLVGNRAPVAIGVAAMSTAEM 156
Cdd:pfam01472  11 KAILNGASLLAPGVV---RVDGDFRKGDEVVV-VTEKGELVAVGLANYSSEEL 59
 
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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