UniProtKB - P0AAR3 (YBAK_ECOLI)
Protein
Cys-tRNA(Pro)/Cys-tRNA(Cys) deacylase YbaK
Gene
ybaK
Organism
Escherichia coli (strain K12)
Status
Functioni
Functions in trans to edit the amino acid from incorrectly charged Cys-tRNA(Pro) via a Cys-tRNA(Pro) deacylase activity. May compensate for the lack of Cys-tRNA(Pro) editing by ProRS. Is also able to deacylate Cys-tRNA(Cys), and displays weak deacylase activity in vitro against Gly-tRNA(Gly), as well as, at higher concentrations, some other correctly charged tRNAs. Unlike some of its orthologs it is not able to remove the amino acid moiety from incorrectly charged Ala-tRNA(Pro).2 Publications
Miscellaneous
Has been suggested to be potentially involved in suppression of transcription of ushA.
Reaction mechanism involves exclusion of catalytic water from the active site and substrate-mediated catalysis: the sulfhydryl side chain of the Cys substrate acts as a nucleophile and attacks the carbonyl center of the ester bond, leading to the cleavage of the Cys-tRNA ester bond and formation of a cyclic cysteine thiolactone intermediate. In contrast, the INS editing domain of ProRS catalyzes Ala-tRNA(Pro) hydrolysis via nucleophilic attack by a catalytic water molecule (PubMed:23185990).1 Publication
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sitei | 29 | Participates in proton transfer during catalysis | 1 |
GO - Molecular functioni
- aminoacyl-tRNA editing activity Source: UniProtKB
- Cys-tRNA(Pro) hydrolase activity Source: EcoCyc
- lyase activity Source: UniProtKB-KW
GO - Biological processi
- response to X-ray Source: EcoCyc
- translation Source: UniProtKB-KW
Keywordsi
Molecular function | Lyase |
Biological process | Protein biosynthesis |
Enzyme and pathway databases
BioCyci | EcoCyc:EG12454-MONOMER |
Names & Taxonomyi
Protein namesi | |
Gene namesi | Name:ybaK Ordered Locus Names:b0481, JW0470 |
Organismi | Escherichia coli (strain K12) |
Taxonomic identifieri | 83333 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia › |
Proteomesi |
|
Subcellular locationi
- Cytoplasm By similarity
GO - Cellular componenti
- cytosol Source: EcoCyc
Keywords - Cellular componenti
CytoplasmPathology & Biotechi
Disruption phenotypei
Non-essential gene.1 Publication
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 30 | G → C, I or V: >100-fold decrease in Cys-tRNA(Pro) deacylation activity. Fails to gain Ala-tRNA(Pro) deacylation activity. 1 Publication | 1 | |
Mutagenesisi | 136 | D → A or C: 6-fold decrease in Cys-tRNA(Pro) deacylation activity. 1 Publication | 1 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000168620 | 1 – 159 | Cys-tRNA(Pro)/Cys-tRNA(Cys) deacylase YbaKAdd BLAST | 159 |
Proteomic databases
jPOSTi | P0AAR3 |
PaxDbi | P0AAR3 |
PRIDEi | P0AAR3 |
Interactioni
Binary interactionsi
P0AAR3
With | #Exp. | IntAct |
---|---|---|
lpdA [P0A9P0] | 2 | EBI-559987,EBI-542856 |
Protein-protein interaction databases
BioGRIDi | 4263284, 32 interactors |
DIPi | DIP-48133N |
IntActi | P0AAR3, 17 interactors |
STRINGi | 511145.b0481 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P0AAR3 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P0AAR3 |
Family & Domainsi
Sequence similaritiesi
Phylogenomic databases
eggNOGi | COG2606, Bacteria |
HOGENOMi | CLU_094875_1_1_6 |
InParanoidi | P0AAR3 |
PhylomeDBi | P0AAR3 |
Family and domain databases
CDDi | cd00002, YbaK_deacylase, 1 hit |
Gene3Di | 3.90.960.10, 1 hit |
InterProi | View protein in InterPro IPR004369, Prolyl-tRNA_editing_YbaK/EbsC IPR036754, YbaK/aa-tRNA-synt-asso_dom_sf IPR007214, YbaK/aa-tRNA-synth-assoc-dom |
Pfami | View protein in Pfam PF04073, tRNA_edit, 1 hit |
PIRSFi | PIRSF006181, EbsC_YbaK, 1 hit |
SUPFAMi | SSF55826, SSF55826, 1 hit |
TIGRFAMsi | TIGR00011, YbaK_EbsC, 1 hit |
i Sequence
Sequence statusi: Complete.
P0AAR3-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MTPAVKLLEK NKISFQIHTY EHDPAETNFG DEVVKKLGLN PDQVYKTLLV
60 70 80 90 100
AVNGDMKHLA VAVTPVAGQL DLKKVAKALG AKKVEMADPM VAQRSTGYLV
110 120 130 140 150
GGISPLGQKK RLPTIIDAPA QEFATIYVSG GKRGLDIELA AGDLAKILDA
KFADIARRD
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U82664 Genomic DNA Translation: AAB40235.1 U00096 Genomic DNA Translation: AAC73583.1 AP009048 Genomic DNA Translation: BAE76260.1 X03895 Genomic DNA No translation available. |
PIRi | H64778 |
RefSeqi | NP_415014.1, NC_000913.3 WP_000186631.1, NZ_STEB01000007.1 |
Genome annotation databases
EnsemblBacteriai | AAC73583; AAC73583; b0481 BAE76260; BAE76260; BAE76260 |
GeneIDi | 48107112 947083 |
KEGGi | ecj:JW0470 eco:b0481 |
PATRICi | fig|511145.12.peg.501 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U82664 Genomic DNA Translation: AAB40235.1 U00096 Genomic DNA Translation: AAC73583.1 AP009048 Genomic DNA Translation: BAE76260.1 X03895 Genomic DNA No translation available. |
PIRi | H64778 |
RefSeqi | NP_415014.1, NC_000913.3 WP_000186631.1, NZ_STEB01000007.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
2DXA | X-ray | 1.58 | A | 1-159 | [»] | |
SMRi | P0AAR3 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 4263284, 32 interactors |
DIPi | DIP-48133N |
IntActi | P0AAR3, 17 interactors |
STRINGi | 511145.b0481 |
Proteomic databases
jPOSTi | P0AAR3 |
PaxDbi | P0AAR3 |
PRIDEi | P0AAR3 |
Genome annotation databases
EnsemblBacteriai | AAC73583; AAC73583; b0481 BAE76260; BAE76260; BAE76260 |
GeneIDi | 48107112 947083 |
KEGGi | ecj:JW0470 eco:b0481 |
PATRICi | fig|511145.12.peg.501 |
Organism-specific databases
EchoBASEi | EB2348 |
Phylogenomic databases
eggNOGi | COG2606, Bacteria |
HOGENOMi | CLU_094875_1_1_6 |
InParanoidi | P0AAR3 |
PhylomeDBi | P0AAR3 |
Enzyme and pathway databases
BioCyci | EcoCyc:EG12454-MONOMER |
Miscellaneous databases
EvolutionaryTracei | P0AAR3 |
PROi | PR:P0AAR3 |
Family and domain databases
CDDi | cd00002, YbaK_deacylase, 1 hit |
Gene3Di | 3.90.960.10, 1 hit |
InterProi | View protein in InterPro IPR004369, Prolyl-tRNA_editing_YbaK/EbsC IPR036754, YbaK/aa-tRNA-synt-asso_dom_sf IPR007214, YbaK/aa-tRNA-synth-assoc-dom |
Pfami | View protein in Pfam PF04073, tRNA_edit, 1 hit |
PIRSFi | PIRSF006181, EbsC_YbaK, 1 hit |
SUPFAMi | SSF55826, SSF55826, 1 hit |
TIGRFAMsi | TIGR00011, YbaK_EbsC, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | YBAK_ECOLI | |
Accessioni | P0AAR3Primary (citable) accession number: P0AAR3 Secondary accession number(s): P37175, P77281, Q2MBU6 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | October 11, 2005 |
Last sequence update: | October 11, 2005 | |
Last modified: | December 2, 2020 | |
This is version 115 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families