Structure of PDB 2z67 Chain D Binding Site BS01

Receptor Information
>2z67 Chain D (length=434) Species: 267377 (Methanococcus maripaludis S2) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MLDFNIEGLIPKNMEKRGELVLNEYLKEIEDVFNHRKIPENGIDDEKIKL
FLKFLSMMDTDKDPKSVRIGEREARTYSKIHEELSSGFCHGIGRSGNLVD
PQPKASGASIMYALTNKILESFFKQLGLNVHAIATPISTGMSISLCLSAA
RKKYGSNVVIYPYASHKSPIKAVSFVGMNMRLVETVLDGDRVYVPVEDIE
NAIKKEIELGNRPCVLSTLTFFPPRNSDDIVEIAKICENYDIPHIINGAY
AIQNNYYLEKLKKAFKYRVDAVVSSSDKNLLTPIGGGLVYSTDAEFIKEI
SLSYPGRASATPVVNTLVSLLSMGSKNYLELVKNQKNSKKLLDELLNDLS
KKTGGKFLDVESPIASCISVNSDPVEIAAKLYNLRVTGPRGIKKTDHFGN
CYLGTYTHDYIVMNAAIGVRTEDIVNSVSKLEKI
Ligand information
Ligand IDPLP
InChIInChI=1S/C8H10NO6P/c1-5-8(11)7(3-10)6(2-9-5)4-15-16(12,13)14/h2-3,11H,4H2,1H3,(H2,12,13,14)
InChIKeyNGVDGCNFYWLIFO-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341Cc1ncc(CO[P](O)(O)=O)c(C=O)c1O
OpenEye OEToolkits 1.5.0Cc1c(c(c(cn1)COP(=O)(O)O)C=O)O
ACDLabs 10.04O=P(O)(O)OCc1cnc(c(O)c1C=O)C
FormulaC8 H10 N O6 P
NamePYRIDOXAL-5'-PHOSPHATE;
VITAMIN B6 Phosphate
ChEMBLCHEMBL82202
DrugBankDB00114
ZINCZINC000001532514
PDB chain2z67 Chain C Residue 1001 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB2z67 Structural insights into RNA-dependent eukaryal and archaeal selenocysteine formation.
Resolution2.5 Å
Binding residue
(original residue number in PDB)		R72 G306 R307
Binding residue
(residue number reindexed from 1)		R72 G306 R307
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) R72 R94 S95 Q102 H166 A249 K278 R307
Catalytic site (residue number reindexed from 1) R72 R94 S95 Q102 H166 A249 K278 R307
Enzyme Commision number 2.9.1.2: O-phospho-L-seryl-tRNA(Sec):L-selenocysteinyl-tRNA synthase.
Gene Ontology
Molecular Function
GO:0000049 tRNA binding
GO:0016740 transferase activity
GO:0098621 O-phosphoseryl-tRNA(Sec) selenium transferase activity
Biological Process
GO:0001514 selenocysteine incorporation
GO:0001717 conversion of seryl-tRNAsec to selenocys-tRNAsec
GO:0006412 translation

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:2z67, PDBe:2z67, PDBj:2z67
PDBsum2z67
PubMed18158303
UniProtQ6LZM9|SPCS_METMP O-phosphoseryl-tRNA(Sec) selenium transferase (Gene Name=spcS)

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