Structure of PDB 6tix Chain AAA Binding Site BS01

Receptor Information
>6tix Chain AAA (length=498) Species: 632 (Yersinia pestis) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VPIAPSRGMIFDRNGTPLALNRTIYQLELSATLNALRPIVDLTDDDIANF
EIAVKTPLTEVQVARFAVNQFRFPGIEVKGYQRRFYPYGSALTHVIGYVS
KINDKDVERLDKEGILPNYAATHDIGKLGIERYYESTLHGKTGYEEQPPQ
AGKDIYLTLDLSLQIYIEKLLSGSRAAVVVTDPRTGGILALVSNPSYDPN
LFVDGISNKDYQGLLNDTNRPLINRATQGVYPPASTVKPYIAVSALSAGV
ITKNTSLFDPGWWQLPKRYRDWKKWGHGRLNVTKALEESADTFFYQVAYD
MGIDRLSSWMSKFGYGEYTGIDLSEERAGLMPTREWKQKRHKKPWYQGDT
IPVGIGQGYWTATPIQMAKSLMTLINDGTVKTPHLLQSTRIDGVLVPYKQ
EDSTQIGSINSGYWEIAKDGMYGVANRPNGTGRKFFEGTPYKAAAKSGTA
QRDHKLMVAFAPYENPTVSVAIILENGGAGPAVGTITRQILDHILLGD
Ligand information
Ligand IDDH4
InChIInChI=1S/C15H25N3O3S/c1-15(2)12(14(20)21)17-13(22-15)11(9-19)16-10-18-7-5-3-4-6-8-18/h9-13,17H,3-8H2,1-2H3,(H,20,21)/b16-10+/t11-,12?,13?/m1/s1
InChIKeyGIESTXBEHWEDNC-XRSRENSCSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6CC1(C(NC(S1)[C@H](C=O)/N=C/N2CCCCCC2)C(=O)O)C
CACTVS 3.370CC1(C)SC(NC1C(O)=O)[CH](C=O)N=CN2CCCCCC2
OpenEye OEToolkits 1.7.6CC1(C(NC(S1)C(C=O)N=CN2CCCCCC2)C(=O)O)C
ACDLabs 12.01O=C(O)C1NC(SC1(C)C)C(/N=C/N2CCCCCC2)C=O
CACTVS 3.370CC1(C)SC(NC1C(O)=O)[C@@H](C=O)N=CN2CCCCCC2
FormulaC15 H25 N3 O3 S
Name2-[(1R)-1-{[(E)-azepan-1-ylmethylidene]amino}-2-oxoethyl]-5,5-dimethyl-1,3-thiazolidine-4-carboxylic acid;
Mecillinam, bound form
ChEMBL
DrugBank
ZINC
PDB chain6tix Chain AAA Residue 701 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6tix The structure of penicillin-binding protein 2 from Yersinia pestis in complex with mecillinam
Resolution2.8 Å
Binding residue
(original residue number in PDB)
A330 S331 K334 W371 S388 D390 S546 G547 T548
Binding residue
(residue number reindexed from 1)
A234 S235 K238 W272 S289 D291 S447 G448 T449
Annotation score1
Enzymatic activity
Enzyme Commision number 3.4.16.4: serine-type D-Ala-D-Ala carboxypeptidase.
Gene Ontology
Molecular Function
GO:0004180 carboxypeptidase activity
GO:0008658 penicillin binding
GO:0009002 serine-type D-Ala-D-Ala carboxypeptidase activity
Biological Process
GO:0006508 proteolysis
GO:0008360 regulation of cell shape
GO:0009252 peptidoglycan biosynthetic process
GO:0071555 cell wall organization
Cellular Component
GO:0005886 plasma membrane
GO:0016020 membrane

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:6tix, PDBe:6tix, PDBj:6tix
PDBsum6tix
PubMed
UniProtA0A0H2W2Y2

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