Structure of PDB 5w71 Chain A Binding Site BS01

Receptor Information
>5w71 Chain A (length=413) Species: 1397 (Niallia circulans) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
IPFDHWPEWPQHSDRTRRKIEEVFQSNRWAISGYWTGEESMERKFAKAFA
DFNGVPYCVPTTSGSTALMLALEALGIGEGDEVIVPSLTWIATATAVLNV
NALPVFVDVEADTYCIDPQLIKSAITDKTKAIIPVHLFGSMANMDEINEI
AQEHNLFVIEDCAQSHGSVWNNQRAGTIGDIGAFSCQQGKVLTAGEGGII
VTKNPRLFELIQQLRADSRVYCDDSSELMHGDMQLVKKGDIQGSNYCLSE
FQSAILLDQLQELDDKNAIREKNAMFLNDALSKIDGIKVMKRPPQVSRQT
YYGYVFRFDPVKFGGLNADQFCEILREKLNMGTFYLHPPYLPVHKNPLFC
PWTKNRYLKSVRKTEAYWRGLHYPVSERASGQSIVIHHAILLAEPSHLSL
LVDAVAELARKFC
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 chain5w71 Chain A Residue 501 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5w71 The structure of RbmB from Streptomyces ribosidificus, an aminotransferase involved in the biosynthesis of ribostamycin.
Resolution2.1 Å
Binding residue
(original residue number in PDB)		S65 G66 S67 W92 D163 A165 Q166 S187 K192
Binding residue
(residue number reindexed from 1)		S63 G64 S65 W90 D161 A163 Q164 S185 K190
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) W92 D163 Q166 Q189 K192 D225 K239 C249
Catalytic site (residue number reindexed from 1) W90 D161 Q164 Q187 K190 D223 K237 C247
Enzyme Commision number 2.6.1.100: L-glutamine:2-deoxy-scyllo-inosose aminotransferase.
2.6.1.101: L-glutamine:3-amino-2,3-dideoxy-scyllo-inosose aminotransferase.
Gene Ontology
Molecular Function
GO:0003824 catalytic activity
GO:0008483 transaminase activity
GO:0030170 pyridoxal phosphate binding
Biological Process
GO:0000271 polysaccharide biosynthetic process
GO:0017000 antibiotic biosynthetic process

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:5w71, PDBe:5w71, PDBj:5w71
PDBsum5w71
PubMed28685903
UniProtQ8G8Y2|GLDSA_NIACI L-glutamine:2-deoxy-scyllo-inosose aminotransferase (Gene Name=btrR)

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