Structure of PDB 6i5y Chain A

Receptor sequence
>6i5yA (length=411) Species: 469008 (Escherichia coli BL21(DE3)) [Search protein sequence]
NLIKQLQERGLVAQVTDEEALAERLAQGPIALYCGFDPTADSLHLGHLVP
LLCLKRFQQAGHKPVALVGGATGLIGDPSFKAAERKLNTEETVQEWVDKI
RKQVAPFLDFDCGENSAIAANNYDWFGNMNVLTFLRDIGKHFSVNQMINK
EAVKQRLNREDQGISFTEFSYNLLQGYDFACLNKQYGVVLQIGGSDQWGN
ITSGIDLTRRLHQNQVFGLTVPLITKADGTKFGKAVWLDPKKTSPYKFYQ
FWINTADADVYRFLKFFTFMSIEEINALEEEDKNRAQYVLAEQVTRLVHG
EEGLQAAKRITECLFSGSLSALSEADFEQLAQDGVPMVEMEKGADLMQAL
VDSELQPSRGQARKTIASNAITINGEKQSDPEYFFKEEERLFGRFTLLRR
GKKNYCLICWK
3D structure
PDB6i5y Comparative analysis of pyrimidine substituted aminoacyl-sulfamoyl nucleosides as potential inhibitors targeting class I aminoacyl-tRNA synthetases.
ChainA
Resolution1.9 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) T43 H48 H51 K85 R89 Q179 D200 K235 K238
Catalytic site (residue number reindexed from 1) T39 H44 H47 K81 R85 Q175 D196 K231 K234
Enzyme Commision number 6.1.1.1: tyrosine--tRNA ligase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 YSA A Y37 G39 D41 G50 H51 P54 D81 Y175 Q179 D182 G197 G198 D200 Q201 L227 I228 Y33 G35 D37 G46 H47 P50 D77 Y171 Q175 D178 G193 G194 D196 Q197 L223 I224 PDBbind-CN: -logKd/Ki=8.54,Ki=2.9nM
BindingDB: Ki=2.9nM
Gene Ontology
Molecular Function
GO:0000166 nucleotide binding
GO:0003723 RNA binding
GO:0004812 aminoacyl-tRNA ligase activity
GO:0004831 tyrosine-tRNA ligase activity
GO:0005524 ATP binding
GO:0042803 protein homodimerization activity
Biological Process
GO:0006412 translation
GO:0006418 tRNA aminoacylation for protein translation
GO:0006437 tyrosyl-tRNA aminoacylation
GO:0043039 tRNA aminoacylation
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0016020 membrane

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Cellular Component
External links
PDB RCSB:6i5y, PDBe:6i5y, PDBj:6i5y
PDBsum6i5y
PubMed30995568
UniProtP0AGJ9|SYY_ECOLI Tyrosine--tRNA ligase (Gene Name=tyrS)

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