1GM8

Crystal structures of penicillin acylase enzyme-substrate complexes: Structural insights into the catalytic mechanism

Structural Biology Knowledgebase: 1GM8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.162

Literature

Macromolecules
Sequence Display for 1GM8

Classification: HYDROLASE

Total Structure Weight: 86618.68

Macromolecule Entities
Molecule Chains Length Organism Details
PENICILLIN G ACYLASE ALPHA SUBUNIT A 209 Escherichia coli EC#: 3.5.1.11 IUBMB
Fragment: RESIDUES 27-235
Gene Name(s): pac
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PENICILLIN G ACYLASE BETA SUBUNIT B 557 Escherichia coli EC#: 3.5.1.11 IUBMB
Fragment: RESIDUES 290-846
Mutation: N241A
Gene Name(s): pac

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SOX
Query on SOX

B N-[(2S,4S,6R)-2-(DIHYDROXYMETHYL)-4-HYDROXY- 3,3-DIMETHYL-7-OXO-4LAMBDA~4~-THIA-1-AZABICYCLO[3.2.0]HEPT- 6-YL]-2-PHENYLACETAMIDE
OXIDISED PENICILLIN G (Synonym)
C16 H20 N2 O5 S
WMPGEOZLAYOFHH-MBNYWOFBSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

B CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.162
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 51.20 α = 90.00
b = 131.20 β = 105.80
c = 63.90 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-09-11
  • Released Date: 2001-11-28
  • Deposition author(s): McVey, C.E., Walsh, M.A., Dodson, G.G., Wilson, K.S., Brannigan, J.A.

Revision History

  • 2016-12-07
    Type: Citation | Details: REMARK 1, JRNL
  • 2014-02-19
    Type: Biological assembly | Details: REMARK 300,REMARK 350
  • 2014-02-19
    Type: Version format compliance | Details: REMARK 4
  • 2014-02-19
    Type: Non-polymer description | Details: FORMUL
  • 2014-02-19
    Type: Other | Details: REMARK 525,REMARK 280
  • 2014-02-19
    Type: Citation | Details: REMARK 1