Structure of PDB 6nmz Chain A Binding Site BS02

Receptor Information
>6nmz Chain A (length=227) Species: 83332 (Mycobacterium tuberculosis H37Rv) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GGTILVVTGTGTGVGKTVVCAALASAARQAGIDVAVCKPVQTGTARGDDD
LAEVGRLAGVTQLAGLARYPQPMAPAAAAEHAGMALPARDQIVRLIADLD
RPGRLTLVEGAGGLLVELAEPGVTLRDVAVDVAAAALVVVTADLGTLNHT
KLTLEALAAQQVSCAGLVIGSWPDPPGLVAASNRSALARIAMVRAALPAG
AASLDAGDFAAMSAAAFDRNWVAGLVG
Ligand information
Ligand IDKSP
InChIInChI=1S/C14H16O4/c15-12-7-2-1-5-11(12)14(18)10-6-3-4-9(10)8-13(16)17/h1-2,5,7,9-10,15H,3-4,6,8H2,(H,16,17)/t9-,10+/m1/s1
InChIKeyLULBZYDRYZGRST-ZJUUUORDSA-N
SMILES
SoftwareSMILES
CACTVS 3.385OC(=O)C[C@H]1CCC[C@@H]1C(=O)c2ccccc2O
CACTVS 3.385OC(=O)C[CH]1CCC[CH]1C(=O)c2ccccc2O
ACDLabs 12.01c1cccc(c1O)C(C2C(CCC2)CC(O)=O)=O
OpenEye OEToolkits 2.0.6c1ccc(c(c1)C(=O)[C@H]2CCC[C@@H]2CC(=O)O)O
OpenEye OEToolkits 2.0.6c1ccc(c(c1)C(=O)C2CCCC2CC(=O)O)O
FormulaC14 H16 O4
Name[(1R,2S)-2-(2-hydroxybenzene-1-carbonyl)cyclopentyl]acetic acid
ChEMBL
DrugBank
ZINC
PDB chain6nmz Chain A Residue 302 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB6nmz Crystal structure of Mycobacterium tuberculosis dethiobiotin synthetase in complex with an intentionally produced fragment degradation product B9D
Resolution2.4 Å
Binding residue
(original residue number in PDB)		T11 K15 T41 A73 A110 G111
Binding residue
(residue number reindexed from 1)		T12 K16 T42 A74 A111 G112
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) T11 G12 K15 T16 K37 T41 G54 E108
Catalytic site (residue number reindexed from 1) T12 G13 K16 T17 K38 T42 G55 E109
Enzyme Commision number 6.3.3.3: dethiobiotin synthase.
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0004141 dethiobiotin synthase activity
GO:0005524 ATP binding
GO:0016874 ligase activity
GO:0046872 metal ion binding
Biological Process
GO:0009102 biotin biosynthetic process
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6nmz, PDBe:6nmz, PDBj:6nmz
PDBsum6nmz
PubMed
UniProtP9WPQ5|BIOD_MYCTU Dethiobiotin synthetase BioD (Gene Name=bioD)

[Back to BioLiP]