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Conserved domains on  [gi|501083696|ref|WP_012134213|]
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MULTISPECIES: YbaK/EbsC family protein [Citrobacter]

Protein Classification

YbaK/EbsC family protein( domain architecture ID 10137841)

YbaK/EbsC family protein similar to Aeropyrum pernix Ape2540 YbaK a putative trans-editing enzyme for prolyl-tRNA synthetase

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ProX_deacylase cd04333
This CD, composed mainly of bacterial single-domain proteins, includes the Thermus ...
 3-150 1.48e-73

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: 216.60  E-value: 1.48e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696   3 LQSVRQFLAERAPDIEIIELNQSTATVELAAKAHNVAPGQIAKTLSLKVKDDIILVVAKGDARLDNKKLKSTFGAKARML 82
Cdd:cd04333    1 VERVRAFLAARGLDLEVIELPESTRTAALAAEALGCEPGQIAKSLVFRVDDEPVLVVTSGDARVDNKKFKALFGEKLKMA 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 501083696  83 SSDEVVIATGHPVGGVCPFGLETPLPVYCDVSLKHYAEVLPAAGATHSAVRISPDRMAELTSATWIDV 150
Cdd:cd04333   81 DAEEVRELTGFAIGGVCPFGHPEPLPVYLDESLKRFDEVWAAAGTPNAAFRLTPDELERLTGAEWVDV 148
 
Name Accession Description Interval E-value
ProX_deacylase cd04333
This CD, composed mainly of bacterial single-domain proteins, includes the Thermus ...
 3-150 1.48e-73

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: 216.60  E-value: 1.48e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696   3 LQSVRQFLAERAPDIEIIELNQSTATVELAAKAHNVAPGQIAKTLSLKVKDDIILVVAKGDARLDNKKLKSTFGAKARML 82
Cdd:cd04333    1 VERVRAFLAARGLDLEVIELPESTRTAALAAEALGCEPGQIAKSLVFRVDDEPVLVVTSGDARVDNKKFKALFGEKLKMA 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 501083696  83 SSDEVVIATGHPVGGVCPFGLETPLPVYCDVSLKHYAEVLPAAGATHSAVRISPDRMAELTSATWIDV 150
Cdd:cd04333   81 DAEEVRELTGFAIGGVCPFGHPEPLPVYLDESLKRFDEVWAAAGTPNAAFRLTPDELERLTGAEWVDV 148
EbsC COG2606
Cys-tRNA(Pro) deacylase, prolyl-tRNA editing enzyme YbaK/EbsC [Translation, ribosomal ...
 4-152 3.10e-55

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: 170.27  E-value: 3.10e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696   4 QSVRQFLAERAPDIEIIELNQSTATVELAAKAHNVAPGQIAKTLSLKVKDDIILVVAKGDARLDNKKLKSTFGA-KARML 82
Cdd:COG2606    1 TPVRRALDAAGIPYEVVEHPEPAATAEEAAEALGVPPEQIAKTLVFRGDGGPVLAVVPGDRRLDLKKLAAALGAkKVEMA 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696  83 SSDEVVIATGHPVGGVCPFGLETPLPVYCDVSLKHYAEVLPAAGATHSAVRISPDRMAELTSATWIDVCQ 152
Cdd:COG2606   81 DPEEVERLTGYEVGGVSPFGLKKGLPVYVDESLLEFDEVYVSAGDRGLLVELAPADLARLTGATVADIAR 150
tRNA_edit pfam04073
Aminoacyl-tRNA editing domain; This domain is found either on its own or in association with ...
 26-142 1.52e-24

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: 91.51  E-value: 1.52e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696   26 TATVELAAKAHNVAPGQIAKTLSLKVKDDI-ILVVAKGDARLDNKKLKSTFGAK-ARMLSSDEVVIATGHPVGGVCPFGL 103
Cdd:pfam04073   4 AATIEELAAALGVPPGRIAKTLVLKDKKGKyVLVVVPGDREVDLKKLAKLLGVKrLRLASEEELLELTGVEPGGVTPFGL 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 501083696  104 ETP-LPVYCDVSLKHYAEVLPAAGATHSAVRISPDRMAEL 142
Cdd:pfam04073  84 KAKgVPVLVDESLKDLPDVVVGAGENGATLRLSNADLRKL 123
YbaK_EbsC TIGR00011
Cys-tRNA(Pro) deacylase; This model represents the YbaK family, bacterial proteins whose full ...
 30-151 5.62e-13

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: 62.25  E-value: 5.62e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696   30 ELAAKAHNVAPGQIAKTLSLKV-KDDIILVVAKGDARLDNKKLKSTFGAK-ARMLSSDEVVIATGHPVGGVCPFGLETPL 107
Cdd:TIGR00011  29 ESAAEKLGVDPHRVFKTLVAEGdKKGPVVAVIPGDEELDLKKLAKASGGKkAEMADPKDAEKVTGYIRGGISPIGQKKKF 108

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 501083696  108 PVYCDVSLKHYAEVLPAAGATHSAVRISPDRMAELTSATWIDVC 151
Cdd:TIGR00011 109 PTYIDESAKQLETIYVSGGKRGLQIELAPDDLIRLLDGTFADIA 152
PRK09194 PRK09194
prolyl-tRNA synthetase; Provisional
 26-116 3.14e-10

prolyl-tRNA synthetase; Provisional


Pssm-ID: 236405 [Multi-domain]  Cd Length: 565  Bit Score: 57.02  E-value: 3.14e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696  26 TATVELAAKAHNVAPGQIAKTLSLKVKDDIILVVAKGDARLDNKKLKSTFGAKA-RMLSSDEVVIATGHPVGGVCPFGLE 104
Cdd:PRK09194 258 AKTIEELAEFLNVPAEKTVKTLLVKADGELVAVLVRGDHELNEVKLENLLGAAPlELATEEEIRAALGAVPGFLGPVGLP 337

                         90
                 ....*....|..
gi 501083696 105 TPLPVYCDVSLK 116
Cdd:PRK09194 338 KDVPIIADRSVA 349
 
Name Accession Description Interval E-value
ProX_deacylase cd04333
This CD, composed mainly of bacterial single-domain proteins, includes the Thermus ...
 3-150 1.48e-73

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: 216.60  E-value: 1.48e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696   3 LQSVRQFLAERAPDIEIIELNQSTATVELAAKAHNVAPGQIAKTLSLKVKDDIILVVAKGDARLDNKKLKSTFGAKARML 82
Cdd:cd04333    1 VERVRAFLAARGLDLEVIELPESTRTAALAAEALGCEPGQIAKSLVFRVDDEPVLVVTSGDARVDNKKFKALFGEKLKMA 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 501083696  83 SSDEVVIATGHPVGGVCPFGLETPLPVYCDVSLKHYAEVLPAAGATHSAVRISPDRMAELTSATWIDV 150
Cdd:cd04333   81 DAEEVRELTGFAIGGVCPFGHPEPLPVYLDESLKRFDEVWAAAGTPNAAFRLTPDELERLTGAEWVDV 148
EbsC COG2606
Cys-tRNA(Pro) deacylase, prolyl-tRNA editing enzyme YbaK/EbsC [Translation, ribosomal ...
 4-152 3.10e-55

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: 170.27  E-value: 3.10e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696   4 QSVRQFLAERAPDIEIIELNQSTATVELAAKAHNVAPGQIAKTLSLKVKDDIILVVAKGDARLDNKKLKSTFGA-KARML 82
Cdd:COG2606    1 TPVRRALDAAGIPYEVVEHPEPAATAEEAAEALGVPPEQIAKTLVFRGDGGPVLAVVPGDRRLDLKKLAAALGAkKVEMA 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696  83 SSDEVVIATGHPVGGVCPFGLETPLPVYCDVSLKHYAEVLPAAGATHSAVRISPDRMAELTSATWIDVCQ 152
Cdd:COG2606   81 DPEEVERLTGYEVGGVSPFGLKKGLPVYVDESLLEFDEVYVSAGDRGLLVELAPADLARLTGATVADIAR 150
YbaK_like cd04332
YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of ...
 16-143 9.67e-34

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: 115.33  E-value: 9.67e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696  16 DIEIIELNQSTATVELAAKAHNVAPGQIAKTLSLKVKDD-IILVVAKGDARLDNKKLKSTFGA-KARMLSSDEVVIATGH 93
Cdd:cd04332    1 EYLEYEHTPGAKTIEEAAEALGVPPGQIAKTLVLKDDKGgLVLVVVPGDHELDLKKLAKALGAkKLRLASEEELEELTGC 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 501083696  94 PVGGVCPFGLETPLPVYCDVSLKHYAEVLPAAGATHSAVRISPDRMAELT 143
Cdd:cd04332   81 EPGGVGPFGLKKGVPVVVDESLLELEDVYVGAGERGADLHLSPADLLRLL 130
tRNA_edit pfam04073
Aminoacyl-tRNA editing domain; This domain is found either on its own or in association with ...
 26-142 1.52e-24

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: 91.51  E-value: 1.52e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696   26 TATVELAAKAHNVAPGQIAKTLSLKVKDDI-ILVVAKGDARLDNKKLKSTFGAK-ARMLSSDEVVIATGHPVGGVCPFGL 103
Cdd:pfam04073   4 AATIEELAAALGVPPGRIAKTLVLKDKKGKyVLVVVPGDREVDLKKLAKLLGVKrLRLASEEELLELTGVEPGGVTPFGL 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 501083696  104 ETP-LPVYCDVSLKHYAEVLPAAGATHSAVRISPDRMAEL 142
Cdd:pfam04073  84 KAKgVPVLVDESLKDLPDVVVGAGENGATLRLSNADLRKL 123
YbaK_deacylase cd00002
This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia ...
 32-150 8.68e-15

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: 67.09  E-value: 8.68e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696  32 AAKAHNVAPGQIAKTLSLKV-KDDIILVVAKGDARLDNKKLKSTFGAK-ARMLSSDEVVIATGHPVGGVCPFGLETPLPV 109
Cdd:cd00002   32 AAEKLGLDPEQVFKTLVVEGdKKGLVVAVVPVDEELDLKKLAKALGAKkVEMAPPKDAERLTGYIRGGISPLGQKKRLPT 111

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 501083696 110 YCDVSLKHYAEVLPAAGATHSAVRISPDRMAELTSATWIDV 150
Cdd:cd00002  112 VIDESALDLDTIYVSAGKRGLQIELAPQDLAKLTGAKFADI 152
YbaK_EbsC TIGR00011
Cys-tRNA(Pro) deacylase; This model represents the YbaK family, bacterial proteins whose full ...
 30-151 5.62e-13

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: 62.25  E-value: 5.62e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696   30 ELAAKAHNVAPGQIAKTLSLKV-KDDIILVVAKGDARLDNKKLKSTFGAK-ARMLSSDEVVIATGHPVGGVCPFGLETPL 107
Cdd:TIGR00011  29 ESAAEKLGVDPHRVFKTLVAEGdKKGPVVAVIPGDEELDLKKLAKASGGKkAEMADPKDAEKVTGYIRGGISPIGQKKKF 108

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 501083696  108 PVYCDVSLKHYAEVLPAAGATHSAVRISPDRMAELTSATWIDVC 151
Cdd:TIGR00011 109 PTYIDESAKQLETIYVSGGKRGLQIELAPDDLIRLLDGTFADIA 152
PRK09194 PRK09194
prolyl-tRNA synthetase; Provisional
 26-116 3.14e-10

prolyl-tRNA synthetase; Provisional


Pssm-ID: 236405 [Multi-domain]  Cd Length: 565  Bit Score: 57.02  E-value: 3.14e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696  26 TATVELAAKAHNVAPGQIAKTLSLKVKDDIILVVAKGDARLDNKKLKSTFGAKA-RMLSSDEVVIATGHPVGGVCPFGLE 104
Cdd:PRK09194 258 AKTIEELAEFLNVPAEKTVKTLLVKADGELVAVLVRGDHELNEVKLENLLGAAPlELATEEEIRAALGAVPGFLGPVGLP 337

                         90
                 ....*....|..
gi 501083696 105 TPLPVYCDVSLK 116
Cdd:PRK09194 338 KDVPIIADRSVA 349
YeaK cd04336
YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. ...
 26-115 4.67e-10

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: 54.66  E-value: 4.67e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696  26 TATVELAAKAHNVAPGQIAKTLSLKVKDDI---ILVVAKGDARLDNKKLKSTFGA-KARMLSSDEVVIATGHPVGGVCPF 101
Cdd:cd04336   23 EGTSEEVAAIRGTELGQGAKALLCKVKDGSrrfVLAVLPADKKLDLKAVAAAVGGkKADLASPEEAEELTGCVIGAVPPF 102

                         90
                 ....*....|....
gi 501083696 102 GLETPLPVYCDVSL 115
Cdd:cd04336  103 SFDPKLKLIADPSL 116
ProRS-INS cd04334
INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA ...
 10-117 3.24e-09

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: 52.51  E-value: 3.24e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696  10 LAERAPDIEIIELNQSTA---------TVELAAKAHNVAPGQIAKTLSLKVKDD--IILVVAKGDARLDNKKLKSTFGAK 78
Cdd:cd04334   10 KAESLPPAAERPAPPKELekvatpgqkTIEELAEFLGVPPSQTVKTLLVKADGEeeLVAVLLRGDHELNEVKLENLLGAA 89

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 501083696  79 A-RMLSSDEVVIATGHPVGGVCPFGLEtPLPVYCDVSLKH 117
Cdd:cd04334   90 PlELASEEEIEAATGAPPGFIGPVGLK-KIPIIADRSVAD 128
PRK10670 PRK10670
Cys-tRNA(Pro)/Cys-tRNA(Cys) deacylase YbaK;
32-150 3.01e-05

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


Pssm-ID: 182634  Cd Length: 159  Bit Score: 41.65  E-value: 3.01e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696  32 AAKAHNVAPGQIAKTLSLKVKDD---IILVVAKGDARLDNKKLKSTFGAK-ARMLSSDEVVIATGHPVGGVCPFGLETPL 107
Cdd:PRK10670  33 VVRKLGLNADQVYKTLLVAVNGDmkhLAVAVTPVAGQLDLKKVAKALGAKkVEMADPMVAQRSTGYLVGGISPLGQKKRL 112

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 501083696 108 PVYCDVSLKHYAEVLPAAGATHSAVRISPDRMAELTSATWIDV 150
Cdd:PRK10670 113 PTVIDAPAQEFATIYVSGGKRGLDIELAAGDLAKLLDAKFADI 155
PA2301 cd04939
PA2301 is an uncharacterized Pseudomonas aeruginosa protein with a YbaK-like domain of unknown ...
 58-145 5.52e-04

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: 37.71  E-value: 5.52e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696  58 VVAKGDARLD-NKKLKSTFGA-KARMLSSDEVVIATGHPVGGVCPFGLETPLPVYCDVSLKHYAEVLPAAGATHSAVRIS 135
Cdd:cd04939   47 CVVLATTRADvNGVVKRRLGArKASFAPMETAVELTGMEYGGITPVGLPAGWPILVDSAVAERPAVVIGSGVRRSKLLLP 126

                         90
                 ....*....|
gi 501083696 136 PDRMAELTSA 145
Cdd:cd04939  127 GAALAELPGA 136
PrdX_deacylase cd04335
This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and ...
 4-103 1.38e-03

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: 37.11  E-value: 1.38e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501083696   4 QSVRQFLAERAPDIEIIElNQSTATVElAAKAHNVA-PGQIAKTLSLK-VKDDIILVVAKGDARLDNKKLKSTFGAKaRM 81
Cdd:cd04335    2 DELLALLDELGIAYETVE-HPPVFTVE-EADEVLGElPGAHTKNLFLKdKKGRLYLVTALHDKKVDLKALSKQLGAS-RL 78

                         90       100
                 ....*....|....*....|....
gi 501083696  82 -LSSDEVVIAT-GHPVGGVCPFGL 103
Cdd:cd04335   79 sFASEERLEEKlGVTPGSVTPFAL 102
 
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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