Structure of PDB 1e1o Chain A Binding Site BS01

Receptor Information
>1e1o Chain A (length=484) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AIDFNDELRNRREKLAALRQQGVAFPNDFRRDHTSDQLHEEFDAKDNQEL
ESLNIEVSVAGRMMTRRIMGKASFVTLQDVGGRIQLYVARDSLPEGVYND
QFKKWDLGDIIGARGTLFKTQTGELSIHCTELRLLTKALRPLPDQEVRYR
QRYLDLIANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGA
SARPFITHHNALDLDMYLRIAPELYLKRLVVGGFERVFEINRNFRNEGIS
VHNPEFTMMELYMAYADYHDLIELTESLFRTLAQEVLGTTKVTYGEHVFD
FGKPFEKLTMREAIKKYRPETDMADLDNFDAAKALAESIGITVEKSWGLG
RIVTEIFDEVAEAHLIQPTFITEYPAEVSPLARRNDVNPEITDRFEFFIG
GREIGNGFSELNDAEDQAERFQEQVNAKAAGDDEAMFYDEDYVTALEYGL
PPTAGLGIGIDRMIMLFTNSHTIRDVILFPAMRP
Ligand information
Ligand IDLYS
InChIInChI=1S/C6H14N2O2/c7-4-2-1-3-5(8)6(9)10/h5H,1-4,7-8H2,(H,9,10)/p+1/t5-/m0/s1
InChIKeyKDXKERNSBIXSRK-YFKPBYRVSA-O
SMILES
SoftwareSMILES
CACTVS 3.341N[CH](CCCC[NH3+])C(O)=O
ACDLabs 10.04O=C(O)C(N)CCCC[NH3+]
OpenEye OEToolkits 1.5.0C(CC[NH3+])C[C@@H](C(=O)O)N
CACTVS 3.341N[C@@H](CCCC[NH3+])C(O)=O
OpenEye OEToolkits 1.5.0C(CC[NH3+])CC(C(=O)O)N
FormulaC6 H15 N2 O2
NameLYSINE
ChEMBL
DrugBank
ZINC
PDB chain1e1o Chain A Residue 510 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB1e1o Active Site of Lysyl-tRNA Synthetase: Structural Studies of the Adenylation Reaction
Resolution2.12 Å
Binding residue
(original residue number in PDB)		G216 E240 E278 Y280 N424 F426 E428 G473 G475
Binding residue
(residue number reindexed from 1)		G199 E223 E260 Y262 N406 F408 E410 G455 G457
Annotation score5
Enzymatic activity
Catalytic site (original residue number in PDB) R262 E264 H270 E421 N424 R480
Catalytic site (residue number reindexed from 1) R245 E247 H252 E403 N406 R462
Enzyme Commision number 6.1.1.6: lysine--tRNA ligase.
Gene Ontology
Molecular Function
GO:0000049 tRNA binding
GO:0000166 nucleotide binding
GO:0000287 magnesium ion binding
GO:0003676 nucleic acid binding
GO:0004812 aminoacyl-tRNA ligase activity
GO:0004824 lysine-tRNA ligase activity
GO:0005524 ATP binding
GO:0016874 ligase activity
GO:0042803 protein homodimerization activity
GO:0046872 metal ion binding
Biological Process
GO:0006412 translation
GO:0006418 tRNA aminoacylation for protein translation
GO:0006430 lysyl-tRNA aminoacylation
GO:0034605 cellular response to heat
GO:0036260 RNA capping
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0016020 membrane

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:1e1o, PDBe:1e1o, PDBj:1e1o
PDBsum1e1o
PubMed10913247
UniProtP0A8N5|SYK2_ECOLI Lysine--tRNA ligase, heat inducible (Gene Name=lysU)

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