Structure of PDB 2ri1 Chain B Binding Site BS01

Receptor Information
>2ri1 Chain B (length=235) Species: 1309 (Streptococcus mutans) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GSMKTIKVKNKTEGSKVAFRMLEEEITFGAKTLGLATGSTPLELYKEIRE
SHLDFSDMVSINLDEYVGLSADDKQSYAYFMKQNLFAAKPFKKSYLPNGL
AADLAKETEYYDQILAQYPIDLQILGIGRNAHIGFNEPGTAFSSQTHLVD
LTPSTIAANSRFFEKAEDVPKQAISMGLASIMSAKMILLMAFGEEKAEAV
AAMVKGPVTEEIPASILQTHPKVILIVDEKAGAGI
Ligand information
Ligand IDGLP
InChIInChI=1S/C6H14NO8P/c7-3-5(9)4(8)2(15-6(3)10)1-14-16(11,12)13/h2-6,8-10H,1,7H2,(H2,11,12,13)/t2-,3-,4-,5-,6+/m1/s1
InChIKeyXHMJOUIAFHJHBW-UKFBFLRUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0C([C@@H]1[C@H]([C@@H]([C@H]([C@H](O1)O)N)O)O)OP(=O)(O)O
CACTVS 3.341N[CH]1[CH](O)O[CH](CO[P](O)(O)=O)[CH](O)[CH]1O
OpenEye OEToolkits 1.5.0C(C1C(C(C(C(O1)O)N)O)O)OP(=O)(O)O
CACTVS 3.341N[C@H]1[C@@H](O)O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@@H]1O
ACDLabs 10.04O=P(O)(O)OCC1OC(O)C(N)C(O)C1O
FormulaC6 H14 N O8 P
Name2-amino-2-deoxy-6-O-phosphono-alpha-D-glucopyranose;
GLUCOSAMINE 6-PHOSPHATE;
6-O-phosphono-alpha-D-glucosamine;
2-amino-2-deoxy-6-O-phosphono-alpha-D-glucose;
2-amino-2-deoxy-6-O-phosphono-D-glucose;
2-amino-2-deoxy-6-O-phosphono-glucose
ChEMBL
DrugBankDB02657
ZINCZINC000004097103
PDB chain2ri1 Chain B Residue 234 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB2ri1 Ring-opening mechanism revealed by crystal structures of NagB and its ES intermediate complex
Resolution2.03 Å
Binding residue
(original residue number in PDB)
G36 S37 T38 H130 K194
Binding residue
(residue number reindexed from 1)
G38 S39 T40 H132 K196
Annotation score5
Enzymatic activity
Catalytic site (original residue number in PDB) D62 N128 H130 E135
Catalytic site (residue number reindexed from 1) D64 N130 H132 E137
Enzyme Commision number 3.5.99.6: glucosamine-6-phosphate deaminase.
Gene Ontology
Molecular Function
GO:0004342 glucosamine-6-phosphate deaminase activity
GO:0016787 hydrolase activity
GO:0042802 identical protein binding
Biological Process
GO:0005975 carbohydrate metabolic process
GO:0006040 amino sugar metabolic process
GO:0006043 glucosamine catabolic process
GO:0006044 N-acetylglucosamine metabolic process
GO:0006046 N-acetylglucosamine catabolic process
GO:0019262 N-acetylneuraminate catabolic process
Cellular Component
GO:0005737 cytoplasm

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Cellular Component
External links
PDB RCSB:2ri1, PDBe:2ri1, PDBj:2ri1
PDBsum2ri1
PubMed18436239
UniProtQ8DV70|NAGB_STRMU Glucosamine-6-phosphate deaminase (Gene Name=nagB)

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