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Conserved domains on  [gi|24111864|ref|NP_706374|]
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hypothetical protein SF0426 [Shigella flexneri 2a str. 301]

Protein Classification

aminoacyl-tRNA deacylase( domain architecture ID 10793438)

aminoacyl-tRNA deacylase of the YbaK/EbsC family

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10670 PRK10670
Cys-tRNA(Pro)/Cys-tRNA(Cys) deacylase YbaK;
1-159 2.15e-112

Cys-tRNA(Pro)/Cys-tRNA(Cys) deacylase YbaK;


:

Pssm-ID: 182634  Cd Length: 159  Bit Score: 315.53  E-value: 2.15e-112
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864    1 MTPAVKLLEKNKISFQIHTYEHDPAETNFGDEVVKKLGLNPDQVYKTLLVAVNGDMKHLAVAVTPVAGQLDLKKVAKALG 80
Cdd:PRK10670   1 MTPAVKLLEKNKISFTLHTYEHDPAETNFGDEVVRKLGLNADQVYKTLLVAVNGDMKHLAVAVTPVAGQLDLKKVAKALG 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 24111864   81 AKKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTIIDAPAQEFATIYVSGGKRGLDIELAAGDLAKILDAKFADIARRD 159
Cdd:PRK10670  81 AKKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTVIDAPAQEFATIYVSGGKRGLDIELAAGDLAKLLDAKFADIARRD 159
 
Name Accession Description Interval E-value
PRK10670 PRK10670
Cys-tRNA(Pro)/Cys-tRNA(Cys) deacylase YbaK;
1-159 2.15e-112

Cys-tRNA(Pro)/Cys-tRNA(Cys) deacylase YbaK;


Pssm-ID: 182634  Cd Length: 159  Bit Score: 315.53  E-value: 2.15e-112
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864    1 MTPAVKLLEKNKISFQIHTYEHDPAETNFGDEVVKKLGLNPDQVYKTLLVAVNGDMKHLAVAVTPVAGQLDLKKVAKALG 80
Cdd:PRK10670   1 MTPAVKLLEKNKISFTLHTYEHDPAETNFGDEVVRKLGLNADQVYKTLLVAVNGDMKHLAVAVTPVAGQLDLKKVAKALG 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 24111864   81 AKKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTIIDAPAQEFATIYVSGGKRGLDIELAAGDLAKILDAKFADIARRD 159
Cdd:PRK10670  81 AKKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTVIDAPAQEFATIYVSGGKRGLDIELAAGDLAKLLDAKFADIARRD 159
YbaK_deacylase cd00002
This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia ...
 1-155 1.03e-83

This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS) inserted (INS) editing domain. The bacterial amino acid trans-editing enzyme YbaK is a deacylase that hydrolyzes cysteinyl-tRNA(Pro)'s mischarged by prolyl-tRNA synthetase. YbaK also hydrolyzes glycyl-tRNA's, alanyl-tRNA's, seryl-tRNA's, and prolyl-tRNA's. YbaK is homologous to the INS domain of prolyl-tRNA synthetase (ProRS) as well as the trans-editing enzyme ProX of Aeropyrum pernix which hydrolyzes alanyl-tRNA's and glycyl-tRNA's.


Pssm-ID: 237976 [Multi-domain]  Cd Length: 152  Bit Score: 242.74  E-value: 1.03e-83
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864   1 MTPAVKLLEKNKISFQIHTYEHDPaETNFGDEVVKKLGLNPDQVYKTLLVAvnGDMKHLAVAVTPVAGQLDLKKVAKALG 80
Cdd:cd00002   1 KTPAIRLLDKAKIPYELHEYEHDE-DASDGLEAAEKLGLDPEQVFKTLVVE--GDKKGLVVAVVPVDEELDLKKLAKALG 77

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 24111864  81 AKKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTIIDAPAQEFATIYVSGGKRGLDIELAAGDLAKILDAKFADI 155
Cdd:cd00002  78 AKKVEMAPPKDAERLTGYIRGGISPLGQKKRLPTVIDESALDLDTIYVSAGKRGLQIELAPQDLAKLTGAKFADI 152
YbaK_EbsC TIGR00011
Cys-tRNA(Pro) deacylase; This model represents the YbaK family, bacterial proteins whose full ...
 2-156 1.90e-67

Cys-tRNA(Pro) deacylase; This model represents the YbaK family, bacterial proteins whose full length sequence is homologous to an insertion domain in proline--tRNA ligases. The domain deacylates mischarged tRNAs. The YbaK protein of Haemophilus influenzae (HI1434) likewise deacylates Ala-tRNA(Pro), but not the correctly charged Pro-tRNA(Pro). A crystallographic study of HI1434 suggests a nucleotide binding function. Previously, a member of this family was described as EbsC and was thought to be involved in cell wall metabolism. [Protein synthesis, tRNA aminoacylation]


Pssm-ID: 272853 [Multi-domain]  Cd Length: 152  Bit Score: 201.69  E-value: 1.90e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864     2 TPAVKLLEKNKISFQIHTYEHDPaETNFGDEVVKKLGLNPDQVYKTLLVAVNGdmKHLAVAVTPVAGQLDLKKVAKALGA 81
Cdd:TIGR00011   1 TNAIRLLDKAKIEYEVHEYEVDP-DHLDGESAAEKLGVDPHRVFKTLVAEGDK--KGPVVAVIPGDEELDLKKLAKASGG 77

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 24111864    82 KKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTIIDAPAQEFATIYVSGGKRGLDIELAAGDLAKILDAKFADIA 156
Cdd:TIGR00011  78 KKAEMADPKDAEKVTGYIRGGISPIGQKKKFPTYIDESAKQLETIYVSGGKRGLQIELAPDDLIRLLDGTFADIA 152
EbsC COG2606
Cys-tRNA(Pro) deacylase, prolyl-tRNA editing enzyme YbaK/EbsC [Translation, ribosomal ...
 2-159 5.03e-61

Cys-tRNA(Pro) deacylase, prolyl-tRNA editing enzyme YbaK/EbsC [Translation, ribosomal structure and biogenesis];


Pssm-ID: 442018 [Multi-domain]  Cd Length: 152  Bit Score: 185.29  E-value: 5.03e-61
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864   2 TPAVKLLEKNKISFQIHTYEHDpaeTNFGDEVVKKLGLNPDQVYKTLLVAVNGDmkhLAVAVTPVAGQLDLKKVAKALGA 81
Cdd:COG2606   1 TPVRRALDAAGIPYEVVEHPEP---AATAEEAAEALGVPPEQIAKTLVFRGDGG---PVLAVVPGDRRLDLKKLAAALGA 74

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 24111864  82 KKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTIIDAPAQEFATIYVSGGKRGLDIELAAGDLAKILDAKFADIARRD 159
Cdd:COG2606  75 KKVEMADPEEVERLTGYEVGGVSPFGLKKGLPVYVDESLLEFDEVYVSAGDRGLLVELAPADLARLTGATVADIARPA 152
tRNA_edit pfam04073
Aminoacyl-tRNA editing domain; This domain is found either on its own or in association with ...
 32-147 2.72e-20

Aminoacyl-tRNA editing domain; This domain is found either on its own or in association with the tRNA synthetase class II core domain (pfam00587). It is involved in the tRNA editing of mis-charged tRNAs including Cys-tRNA(Pro), Cys-tRNA(Cys), Ala-tRNA(Pro). The structure of this domain shows a novel fold.


Pssm-ID: 427693 [Multi-domain]  Cd Length: 123  Bit Score: 80.72  E-value: 2.72e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864    32 EVVKKLGLNPDQVYKTLLVAVNGDmKHLAVAVtPVAGQLDLKKVAKALGAKKVEMADPMVAQRSTGYLVGGISPLG-QKK 110
Cdd:pfam04073   9 ELAAALGVPPGRIAKTLVLKDKKG-KYVLVVV-PGDREVDLKKLAKLLGVKRLRLASEEELLELTGVEPGGVTPFGlKAK 86

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 24111864   111 RLPTIIDAPAQEFATIYVSGGKRGLDIELAAGDLAKI 147
Cdd:pfam04073  87 GVPVLVDESLKDLPDVVVGAGENGATLRLSNADLRKL 123
 
Name Accession Description Interval E-value
PRK10670 PRK10670
Cys-tRNA(Pro)/Cys-tRNA(Cys) deacylase YbaK;
1-159 2.15e-112

Cys-tRNA(Pro)/Cys-tRNA(Cys) deacylase YbaK;


Pssm-ID: 182634  Cd Length: 159  Bit Score: 315.53  E-value: 2.15e-112
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864    1 MTPAVKLLEKNKISFQIHTYEHDPAETNFGDEVVKKLGLNPDQVYKTLLVAVNGDMKHLAVAVTPVAGQLDLKKVAKALG 80
Cdd:PRK10670   1 MTPAVKLLEKNKISFTLHTYEHDPAETNFGDEVVRKLGLNADQVYKTLLVAVNGDMKHLAVAVTPVAGQLDLKKVAKALG 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 24111864   81 AKKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTIIDAPAQEFATIYVSGGKRGLDIELAAGDLAKILDAKFADIARRD 159
Cdd:PRK10670  81 AKKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTVIDAPAQEFATIYVSGGKRGLDIELAAGDLAKLLDAKFADIARRD 159
YbaK_deacylase cd00002
This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia ...
 1-155 1.03e-83

This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS) inserted (INS) editing domain. The bacterial amino acid trans-editing enzyme YbaK is a deacylase that hydrolyzes cysteinyl-tRNA(Pro)'s mischarged by prolyl-tRNA synthetase. YbaK also hydrolyzes glycyl-tRNA's, alanyl-tRNA's, seryl-tRNA's, and prolyl-tRNA's. YbaK is homologous to the INS domain of prolyl-tRNA synthetase (ProRS) as well as the trans-editing enzyme ProX of Aeropyrum pernix which hydrolyzes alanyl-tRNA's and glycyl-tRNA's.


Pssm-ID: 237976 [Multi-domain]  Cd Length: 152  Bit Score: 242.74  E-value: 1.03e-83
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864   1 MTPAVKLLEKNKISFQIHTYEHDPaETNFGDEVVKKLGLNPDQVYKTLLVAvnGDMKHLAVAVTPVAGQLDLKKVAKALG 80
Cdd:cd00002   1 KTPAIRLLDKAKIPYELHEYEHDE-DASDGLEAAEKLGLDPEQVFKTLVVE--GDKKGLVVAVVPVDEELDLKKLAKALG 77

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 24111864  81 AKKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTIIDAPAQEFATIYVSGGKRGLDIELAAGDLAKILDAKFADI 155
Cdd:cd00002  78 AKKVEMAPPKDAERLTGYIRGGISPLGQKKRLPTVIDESALDLDTIYVSAGKRGLQIELAPQDLAKLTGAKFADI 152
YbaK_EbsC TIGR00011
Cys-tRNA(Pro) deacylase; This model represents the YbaK family, bacterial proteins whose full ...
 2-156 1.90e-67

Cys-tRNA(Pro) deacylase; This model represents the YbaK family, bacterial proteins whose full length sequence is homologous to an insertion domain in proline--tRNA ligases. The domain deacylates mischarged tRNAs. The YbaK protein of Haemophilus influenzae (HI1434) likewise deacylates Ala-tRNA(Pro), but not the correctly charged Pro-tRNA(Pro). A crystallographic study of HI1434 suggests a nucleotide binding function. Previously, a member of this family was described as EbsC and was thought to be involved in cell wall metabolism. [Protein synthesis, tRNA aminoacylation]


Pssm-ID: 272853 [Multi-domain]  Cd Length: 152  Bit Score: 201.69  E-value: 1.90e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864     2 TPAVKLLEKNKISFQIHTYEHDPaETNFGDEVVKKLGLNPDQVYKTLLVAVNGdmKHLAVAVTPVAGQLDLKKVAKALGA 81
Cdd:TIGR00011   1 TNAIRLLDKAKIEYEVHEYEVDP-DHLDGESAAEKLGVDPHRVFKTLVAEGDK--KGPVVAVIPGDEELDLKKLAKASGG 77

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 24111864    82 KKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTIIDAPAQEFATIYVSGGKRGLDIELAAGDLAKILDAKFADIA 156
Cdd:TIGR00011  78 KKAEMADPKDAEKVTGYIRGGISPIGQKKKFPTYIDESAKQLETIYVSGGKRGLQIELAPDDLIRLLDGTFADIA 152
EbsC COG2606
Cys-tRNA(Pro) deacylase, prolyl-tRNA editing enzyme YbaK/EbsC [Translation, ribosomal ...
 2-159 5.03e-61

Cys-tRNA(Pro) deacylase, prolyl-tRNA editing enzyme YbaK/EbsC [Translation, ribosomal structure and biogenesis];


Pssm-ID: 442018 [Multi-domain]  Cd Length: 152  Bit Score: 185.29  E-value: 5.03e-61
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864   2 TPAVKLLEKNKISFQIHTYEHDpaeTNFGDEVVKKLGLNPDQVYKTLLVAVNGDmkhLAVAVTPVAGQLDLKKVAKALGA 81
Cdd:COG2606   1 TPVRRALDAAGIPYEVVEHPEP---AATAEEAAEALGVPPEQIAKTLVFRGDGG---PVLAVVPGDRRLDLKKLAAALGA 74

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 24111864  82 KKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTIIDAPAQEFATIYVSGGKRGLDIELAAGDLAKILDAKFADIARRD 159
Cdd:COG2606  75 KKVEMADPEEVERLTGYEVGGVSPFGLKKGLPVYVDESLLEFDEVYVSAGDRGLLVELAPADLARLTGATVADIARPA 152
YbaK_like cd04332
YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of ...
 18-153 4.97e-41

YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze mischarged cysteinyl-tRNA(Pro)'s, thus helping ensure the fidelity of translation. Organisms whose ProRS lacks the INS domain express an INS homolog in trans (e.g. YbaK, ProX, or PrdX).


Pssm-ID: 239824 [Multi-domain]  Cd Length: 136  Bit Score: 134.21  E-value: 4.97e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864  18 HTYEHDPAeTNFGDEVVKKLGLNPDQVYKTLLVAVNGdmKHLAVAVTPVAGQLDLKKVAKALGAKKVEMADPMVAQRSTG 97
Cdd:cd04332   3 LEYEHTPG-AKTIEEAAEALGVPPGQIAKTLVLKDDK--GGLVLVVVPGDHELDLKKLAKALGAKKLRLASEEELEELTG 79

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 24111864  98 YLVGGISPLGQKKRLPTIIDAPAQEFATIYVSGGKRGLDIELAAGDLAKIL-DAKFA 153
Cdd:cd04332  80 CEPGGVGPFGLKKGVPVVVDESLLELEDVYVGAGERGADLHLSPADLLRLLgEAEVA 136
tRNA_edit pfam04073
Aminoacyl-tRNA editing domain; This domain is found either on its own or in association with ...
 32-147 2.72e-20

Aminoacyl-tRNA editing domain; This domain is found either on its own or in association with the tRNA synthetase class II core domain (pfam00587). It is involved in the tRNA editing of mis-charged tRNAs including Cys-tRNA(Pro), Cys-tRNA(Cys), Ala-tRNA(Pro). The structure of this domain shows a novel fold.


Pssm-ID: 427693 [Multi-domain]  Cd Length: 123  Bit Score: 80.72  E-value: 2.72e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864    32 EVVKKLGLNPDQVYKTLLVAVNGDmKHLAVAVtPVAGQLDLKKVAKALGAKKVEMADPMVAQRSTGYLVGGISPLG-QKK 110
Cdd:pfam04073   9 ELAAALGVPPGRIAKTLVLKDKKG-KYVLVVV-PGDREVDLKKLAKLLGVKRLRLASEEELLELTGVEPGGVTPFGlKAK 86

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 24111864   111 RLPTIIDAPAQEFATIYVSGGKRGLDIELAAGDLAKI 147
Cdd:pfam04073  87 GVPVLVDESLKDLPDVVVGAGENGATLRLSNADLRKL 123
YeaK cd04336
YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. ...
 5-156 3.01e-18

YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, and ProX. The primary function of INS is to hydrolyze mischarged cysteinyl-tRNA(Pro)'s, thus helping ensure the fidelity of translation. Organisms whose ProRS lacks the INS domain express a single-domain INS homolog such as YbaK, ProX, or PrdX which supplies the function of INS in trans.


Pssm-ID: 239828 [Multi-domain]  Cd Length: 153  Bit Score: 76.23  E-value: 3.01e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864   5 VKLLEKNKISFQihTYEHDPAETNfgDEVVKKLGLNPDQVYKTLLVAVNGDMKHLAVAVTPVAGQLDLKKVAKALGAKKV 84
Cdd:cd04336   5 QELLNTNGARFR--VLDHPPEGTS--EEVAAIRGTELGQGAKALLCKVKDGSRRFVLAVLPADKKLDLKAVAAAVGGKKA 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 24111864  85 EMADPMVAQRSTGYLVGGISPLGQKKRLPTIIDAP-AQEFATIYVSGGKRGLDIELAAGDLAKILDAKFADIA 156
Cdd:cd04336  81 DLASPEEAEELTGCVIGAVPPFSFDPKLKLIADPSlLDRGDEIAFNAGRLDASVVLDTADYLRIARPLVLQFT 153
ProX_deacylase cd04333
This CD, composed mainly of bacterial single-domain proteins, includes the Thermus ...
 37-155 2.04e-14

This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro) deacylase and also the cis-acting prolyl-tRNA synthetase-editing domain (ProRS-INS). While ProX and ProRS-INS hydrolyze misacylated Ala-tRNA(Pro), the E. coli YbaK hydrolyzes misacylated Cys-tRNA(Pro). A few CD members are N-terminal, YbaK-ProX-like domains of an uncharacterized protein with a C-terminal, predicted Fe-S protein domain.


Pssm-ID: 239825 [Multi-domain]  Cd Length: 148  Bit Score: 65.99  E-value: 2.04e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864  37 LGLNPDQVYKTLLVAVNGDmkhLAVAVTPVAGQLDLKKVAKALGaKKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTII 116
Cdd:cd04333  34 LGCEPGQIAKSLVFRVDDE---PVLVVTSGDARVDNKKFKALFG-EKLKMADAEEVRELTGFAIGGVCPFGHPEPLPVYL 109

                        90       100       110
                ....*....|....*....|....*....|....*....
gi 24111864 117 DAPAQEFATIYVSGGKRGLDIELAAGDLAKILDAKFADI 155
Cdd:cd04333 110 DESLKRFDEVWAAAGTPNAAFRLTPDELERLTGAEWVDV 148
PRK09194 PRK09194
prolyl-tRNA synthetase; Provisional
 31-117 4.53e-09

prolyl-tRNA synthetase; Provisional


Pssm-ID: 236405 [Multi-domain]  Cd Length: 565  Bit Score: 53.93  E-value: 4.53e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864   31 DEVVKKLGLNPDQVYKTLLVAVNGdmKHLAVAVTpvaG--QLDLKKVAKALGAKKVEMADPMVAQRSTGYLVGGISPLGQ 108
Cdd:PRK09194 262 EELAEFLNVPAEKTVKTLLVKADG--ELVAVLVR---GdhELNEVKLENLLGAAPLELATEEEIRAALGAVPGFLGPVGL 336


                 ....*....
gi 24111864  109 KKRLPTIID 117
Cdd:PRK09194 337 PKDVPIIAD 345
ProRS-INS cd04334
INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA ...
 31-117 2.00e-08

INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and single-celled parasites. ProRS catalyzes the attachment of proline to tRNA(Pro); proline is first activated by ATP, and then transferred to the acceptor end of tRNA(Pro). ProRS can inadvertently process noncognate amino acids such as alanine and cysteine, and to avoid such errors, in post-transfer editing, the INS domain deacylates mischarged Ala-tRNA(Pro), thus ensuring the fidelity of translation. Misacylated Cys-tRNA(Pro) is not edited by ProRS. In addition to the INS editing domain, the prokaryote-like ProRS protein contains catalytic and anticodon-binding domains which form a dimeric interface.


Pssm-ID: 239826 [Multi-domain]  Cd Length: 160  Bit Score: 50.59  E-value: 2.00e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864  31 DEVVKKLGLNPDQVYKTLLVAVNGDMKHLAVAVTpvaG--QLDLKKVAKALGAKKVEMADPMVAQRSTGYLVGGISPLGQ 108
Cdd:cd04334  39 EELAEFLGVPPSQTVKTLLVKADGEEELVAVLLR---GdhELNEVKLENLLGAAPLELASEEEIEAATGAPPGFIGPVGL 115


                ....*....
gi 24111864 109 KKrLPTIID 117
Cdd:cd04334 116 KK-IPIIAD 123
PrdX_deacylase cd04335
This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and ...
 6-89 8.97e-04

This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the YbaK and ProX proteins, and the prolyl-tRNA synthetase-editing domain (ProRS-INS), specifically hydrolyzes Ala-tRNA(Pro). In this CD, many of the eukaryotic editing domains are N-terminal and cis-acting, expressed from a multidomain ProRS, however, similar to the bacterial PrdX, the mammalian, amphibian, and echinoderm PrdX-like proteins are trans-acting, single-domain proteins.


Pssm-ID: 239827  Cd Length: 156  Bit Score: 37.50  E-value: 8.97e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864   6 KLLEKNKISFQihTYEHDPAETNfgDEVVKKLGLNPDQVYKTLLVAVNGdmKHLAVAVTPVAGQLDLKKVAKALGAKKVE 85
Cdd:cd04335   6 ALLDELGIAYE--TVEHPPVFTV--EEADEVLGELPGAHTKNLFLKDKK--GRLYLVTALHDKKVDLKALSKQLGASRLS 79


                ....
gi 24111864  86 MADP 89
Cdd:cd04335  80 FASE 83
PA2301 cd04939
PA2301 is an uncharacterized Pseudomonas aeruginosa protein with a YbaK-like domain of unknown ...
 38-145 1.23e-03

PA2301 is an uncharacterized Pseudomonas aeruginosa protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, and ProX. The primary function of INS is to hydrolyze mischarged cysteinyl-tRNA(Pro)'s, thus helping ensure the fidelity of translation. Organisms whose ProRS lacks the INS domain express a single-domain INS homolog such as YbaK, ProX, or PrdX which supplies the function of INS in trans.


Pssm-ID: 240137  Cd Length: 139  Bit Score: 36.94  E-value: 1.23e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24111864  38 GLNPDQVYKTLLVAVN-GDMKHLAVAVTPVAGQLDLKKVAKA-LGAKKVEMADPMVAQRSTGYLVGGISPLGQKKRLPTI 115
Cdd:cd04939  22 GFGLEDSANCVVVAGKrGGEERYAACVVLATTRADVNGVVKRrLGARKASFAPMETAVELTGMEYGGITPVGLPAGWPIL 101

                        90       100       110
                ....*....|....*....|....*....|
gi 24111864 116 IDAPAQEFATIYVSGGKRGLDIELAAGDLA 145
Cdd:cd04939 102 VDSAVAERPAVVIGSGVRRSKLLLPGAALA 131
 
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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