Structure of PDB 6mkh Chain A Binding Site BS01

Receptor Information
>6mkh Chain A (length=445) Species: 1351 (Enterococcus faecalis) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NAKRGEIVDRNGSGLAINKVFDEGVVANIKAFSDKFFVPITVAELPTGAA
TKDTESRYYPLGEAAAQLIGYTGTITAEDIEKNPELSSTGVIGKTGLERA
FDKELRGQDKKDGQTIKLTIDSGVQQQAFAIFDKRPGSAVITDPQKGDLL
ATVSSPSYDPNKMANGISQKEYDAYNNNKDLPFTARFATGYAPGSTFKTI
TGAIGLDAGTLKPDEELEINGLKWQKDKSWGGYFATRVKEASPVNLRTAL
VNSDNIYFAQQTLRMGEDKFRAGLNKFIFGEELDLPIAMTPAQISNEDKF
NSEILLADTGYGQGQLLISPIQQATMYSVFQNNGTLVYPKLVLDKETKKK
DNVISANAANTIATDLLGSVEDPSGYVYNMYNPNFSLAAKTGTAEIKGKE
NSFLLTLDRSNNKFLTMIMVENSGENGSATDISKPLIDYLEATIK
Ligand information
Ligand IDIM2
InChIInChI=1S/C12H19N3O4S/c1-7(17)8(5-16)9-4-10(11(15-9)12(18)19)20-3-2-14-6-13/h5-9,15,17H,2-4H2,1H3,(H2,13,14)(H,18,19)/t7-,8-,9-/m1/s1
InChIKeyUACUABDJLSUFFC-IWSPIJDZSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6[H]/N=C/NCCSC1=C(N[C@H](C1)[C@H](C=O)[C@@H](C)O)C(=O)O
ACDLabs 12.01O=C(O)C1=C(SCCNC=[N@H])CC(N1)C(C=O)C(O)C
CACTVS 3.370C[C@@H](O)[C@@H](C=O)[C@H]1CC(=C(N1)C(O)=O)SCCNC=N
OpenEye OEToolkits 1.7.6CC(C(C=O)C1CC(=C(N1)C(=O)O)SCCNC=N)O
CACTVS 3.370C[CH](O)[CH](C=O)[CH]1CC(=C(N1)C(O)=O)SCCNC=N
FormulaC12 H19 N3 O4 S
Name(5R)-5-[(1S,2R)-1-formyl-2-hydroxypropyl]-3-[(2-{[(E)-iminomethyl]amino}ethyl)sulfanyl]-4,5-dihydro-1H-pyrrole-2-carbox ylic acid;
IMIPENEM, open form;
N-FORMIMIDOYL-THIENAMYCINE, open form
ChEMBL
DrugBank
ZINCZINC000103040234
PDB chain6mkh Chain A Residue 701 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6mkh The structures of penicillin-binding protein 4 (PBP4) and PBP5 fromEnterococciprovide structural insights into beta-lactam resistance.
Resolution2.62 Å
Binding residue
(original residue number in PDB)
S424 K427 S482 N484 Q542 G621 T622
Binding residue
(residue number reindexed from 1)
S195 K198 S253 N255 Q313 G392 T393
Annotation score1
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0008658 penicillin binding
GO:0071972 peptidoglycan L,D-transpeptidase activity
Biological Process
GO:0046677 response to antibiotic
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:6mkh, PDBe:6mkh, PDBj:6mkh
PDBsum6mkh
PubMed30355734
UniProtQ9K3C9

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