Structure of PDB 2d2x Chain A Binding Site BS01

Receptor Information
>2d2x Chain A (length=353) Species: 1397 (Niallia circulans) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TTKQICFADRCFNFAFGEHVLESVESYIPRDEFDQYIMISDSGVPDSIVH
YAAEYFGKLAPVHILRFQGGEEYKTLSTVTNLQERAIALGANRRTAIVAV
GGGLTGNVAGVAAGMMFRGIALIHVPTTFLAASDSVLSIKQAVNLTSGKN
LVGFYYPPRFVFADTRILSESPPRQVKAGMCELVKNMLILKEFTEDDLNS
ANVYSPKQLETFINFCISAKMSVLSEDIYEKKKGLIFEYGHTIGHAIELA
EQGGITHGEAIAVGMIYAAKIANRMNLMPEHDVSAHYWLLNKIGALQDIP
LKSDPDSIFHYLIHEDNLGMILLSGVGKPAMYNQTLLTPVRKTLIKEVIR
EGL
Ligand information
Ligand IDCO
InChIInChI=1S/Co/q+2
InChIKeyXLJKHNWPARRRJB-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Co+2]
CACTVS 3.341[Co++]
FormulaCo
NameCOBALT (II) ION
ChEMBL
DrugBankDB14205
ZINC
PDB chain2d2x Chain A Residue 601 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB2d2x Structure of 2-deoxy-scyllo-inosose synthase, a key enzyme in the biosynthesis of 2-deoxystreptamine-containing aminoglycoside antibiotics, in complex with a mechanism-based inhibitor and NAD+
Resolution2.3 Å
Binding residue
(original residue number in PDB)		E183 H246 H262
Binding residue
(residue number reindexed from 1)		E182 H241 H257
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) R119 K141 E183 K225 E235 G239 E243 H246 H250 H262
Catalytic site (residue number reindexed from 1) R118 K140 E182 K220 E230 G234 E238 H241 H245 H257
Enzyme Commision number 4.2.3.124: 2-deoxy-scyllo-inosose synthase.
Gene Ontology
Molecular Function
GO:0003856 3-dehydroquinate synthase activity
GO:0016829 lyase activity
GO:0016838 carbon-oxygen lyase activity, acting on phosphates
GO:0046872 metal ion binding
Biological Process
GO:0009073 aromatic amino acid family biosynthetic process
GO:0017000 antibiotic biosynthetic process

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:2d2x, PDBe:2d2x, PDBj:2d2x
PDBsum2d2x
PubMed17879343
UniProtQ9S5E2|DOIS_NIACI 2-deoxy-scyllo-inosose synthase (Gene Name=btrC)

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