Structure of PDB 5duj Chain B Binding Site BS01

Receptor Information
>5duj Chain B (length=350) Species: 83331 (Mycobacterium tuberculosis CDC1551) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
LVPKLTASVTDGAVGVTVDAPVSVTAADGVLAAVTMVNDNGRPVAGRLSP
DGLRWSTTEQLGYNRRYTLNATALGLGGAATRQLTFQTSSPAHLTMPYVM
PGDGEVVGVGEPVAIRFDENIADRGAAEKAIKITTNPPVEGAFYWLNNRE
VRWRPEHFWKPGTAVDVAVNTYGVDLGEGMFGEDNVQTHFTIGDEVIATA
DDNTKILTVRVNGEVVKSMPTSMGKDSTPTANGIYIVGSRYKHIIMDSST
YGVPVNSPNGYRTDVDWATQISYSGVFVHSAPWSVGAQGHTNTSHGCLNV
SPSNAQWFYDHVKRGDIVEVVNTVGGTLPGIDGLGDWNIPWDQWRAGNAK
Ligand information
Ligand IDDGF
InChIInChI=1S/C12H17NO5S/c1-6(15)7(5-14)11-13-9(12(16)17)10(19-11)8-3-2-4-18-8/h5-8,10-11,15H,2-4H2,1H3,(H,16,17)/t6-,7-,8-,10+,11-/m1/s1
InChIKeyFHQOUTNMKXYVEY-MKSGQPMJSA-N
SMILES
SoftwareSMILES
CACTVS 3.370C[C@@H](O)[C@@H](C=O)[C@H]1S[C@@H]([C@H]2CCCO2)C(=N1)C(O)=O
OpenEye OEToolkits 1.7.6C[C@H]([C@@H](C=O)[C@@H]1N=C(C(S1)[C@H]2CCCO2)C(=O)O)O
OpenEye OEToolkits 1.7.6CC(C(C=O)C1N=C(C(S1)C2CCCO2)C(=O)O)O
CACTVS 3.370C[CH](O)[CH](C=O)[CH]1S[CH]([CH]2CCCO2)C(=N1)C(O)=O
ACDLabs 12.01O=C(O)C1=NC(SC1C2OCCC2)C(C=O)C(O)C
FormulaC12 H17 N O5 S
Name(2R,5R)-2-[(2S,3R)-3-hydroxy-1-oxobutan-2-yl]-5-[(2R)-tetrahydrofuran-2-yl]-2,5-dihydro-1,3-thiazole-4-carboxylic acid;
FAROPENEM PRODUCT, BOUND FORM
ChEMBL
DrugBank
ZINCZINC000584905526
PDB chain5duj Chain B Residue 502 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5duj Non-classical transpeptidases yield insight into new antibacterials.
Resolution2.17 Å
Binding residue
(original residue number in PDB)
Y318 G332 V333 H352 G353 C354
Binding residue
(residue number reindexed from 1)
Y261 G275 V276 H295 G296 C297
Annotation score1
Enzymatic activity
Enzyme Commision number 2.3.2.-
Gene Ontology
Molecular Function
GO:0016740 transferase activity
GO:0016746 acyltransferase activity
GO:0046872 metal ion binding
GO:0071972 peptidoglycan L,D-transpeptidase activity
Biological Process
GO:0008360 regulation of cell shape
GO:0009252 peptidoglycan biosynthetic process
GO:0018104 peptidoglycan-protein cross-linking
GO:0071555 cell wall organization
Cellular Component
GO:0005886 plasma membrane

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:5duj, PDBe:5duj, PDBj:5duj
PDBsum5duj
PubMed27820797
UniProtI6Y9J2|LDT2_MYCTU L,D-transpeptidase 2 (Gene Name=ldtB)

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