Structure of PDB 1ivs Chain B Binding Site BS01

Receptor Information
>1ivs Chain B (length=862) Species: 274 (Thermus thermophilus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MDLPKAYDPKSVEPKWAEKWAKNPFVANPKSGKPPFVIFMPPPNVTGSLH
MGHALDNSLQDALIRYKRMRGFEAVWLPGTDHAGIATQVVVERLLLKEGK
TRHDLGREKFLERVWQWKEESGGTILKQLKRLGASADWSREAFTMDEKRS
RAVRYAFSRYYHEGLAYRAPRLVNWCPRCETTLSDLEVETEPTPGKLYTL
RYEVEGGGFIEIATVRPETVFADQAIAVHPEDERYRHLLGKRARIPLTEV
WIPILADPAVEKDFGTGALKVTPAHDPLDYEIGERHGLKPVSVINLEGRM
EGERVPEALRGLDRFEARRKAVELFREAGHLVKEEDYTIALATCSRCGTP
IEYAIFPQWWLRMRPLAEEVLKGLRRGDIAFVPERWKKVNMDWLENVKDW
NISRQLWWGHQIPAWYCEDCQAVNVPRPERYLEDPTSCEACGSPRLKRDE
DVFDTWFSSALWPLSTLGWPEETEDLKAFYPGDVLVTGYDILFLWVSRME
VSGYHFMGERPFKTVLLHGLVLDEKGQKMSKSKGNVIDPLEMVERYGADA
LRFALIYLATGGQDIRLDLRWLEMARNFANKLYNAARFVLLSREGFQAKE
DTPTLADRFMRSRLSRGVEEITALYEALDLAQAAREVYELVWSEFCDWYL
EAAKPALKAGNAHTLRTLEEVLAVLLKLLHPMMPFLTSELYQALTGKEEL
ALEAWPEPGGRDEEAERAFEALKQAVTAVRALKAEAGLPPAQEVRVYLEG
ETAPVEENLEVFRFLSRADLLPERPAKALVKAMPRVTARMPLEGLLDVEE
WRRRQEKRLKELLALAERSQRKLASPGFREKAPKEVVEAEEARLKENLEQ
AERIREALSQIG
Ligand information
>1ivs Chain D (length=75) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gggcggcuagcucagcggaagagcgcucgccucacacgcgagaggucgua
gguucaaguccuacgccgcccacca
<<<<<<<..<<<<.......>>>>.<<<<<.......>>>>>.....<<<
<<.......>>>>>>>>>>>>....
Receptor-Ligand Complex Structure
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PDB1ivs Mechanism of molecular interactions for tRNA(Val) recognition by valyl-tRNA synthetase
Resolution2.9 Å
Binding residue
(original residue number in PDB)		A213 T214 V215 E261 F264 L269 L278 E281 Y337 R385 T560 Q563 R566 D568 R570 W571 M574 N577 N580 K581 N584 A585 R587 F588 R635 C646 L650 K654 R730 P740 A741 R767 R818 P826 G827 F828 K831 A832 P833 V836 R843
Binding residue
(residue number reindexed from 1)		A213 T214 V215 E261 F264 L269 L278 E281 Y337 R385 T560 Q563 R566 D568 R570 W571 M574 N577 N580 K581 N584 A585 R587 F588 R635 C646 L650 K654 R730 P740 A741 R767 R818 P826 G827 F828 K831 A832 P833 V836 R843
Enzymatic activity
Catalytic site (original residue number in PDB) C176 C179 C344 C347 W456 I491 W495 K528 K531
Catalytic site (residue number reindexed from 1) C176 C179 C344 C347 W456 I491 W495 K528 K531
Enzyme Commision number 6.1.1.9: valine--tRNA ligase.
Gene Ontology
Molecular Function
GO:0000166 nucleotide binding
GO:0002161 aminoacyl-tRNA editing activity
GO:0004812 aminoacyl-tRNA ligase activity
GO:0004832 valine-tRNA ligase activity
GO:0005524 ATP binding
GO:0046872 metal ion binding
Biological Process
GO:0006412 translation
GO:0006418 tRNA aminoacylation for protein translation
GO:0006438 valyl-tRNA aminoacylation
GO:0106074 aminoacyl-tRNA metabolism involved in translational fidelity
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:1ivs, PDBe:1ivs, PDBj:1ivs
PDBsum1ivs
PubMed12554880
UniProtP96142|SYV_THETH Valine--tRNA ligase (Gene Name=valS)

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