1A85

MMP8 WITH MALONIC AND ASPARAGINE BASED INHIBITOR

Structural Biology Knowledgebase: 1A85 SBKB.org


Experimental Data Snapshot

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

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1A85

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 18216.64

Macromolecule Entities
Molecule Chains Length Organism Details
MMP-8 A 158 Homo sapiens EC#: 3.4.24.34 IUBMB
Gene Name(s): MMP8 Gene View CLG1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
0DY
Query on 0DY

N~1~-(3-aminobenzyl)-N~2~-[(2R)-2-(hydroxycarbamoyl)- 4-methylpentanoyl]-L-aspartamide
HONH-iBM-Asn-NHBn(m-NH2) (Synonym)
C18 H27 N5 O5
LYVDOPZAZLWTSE-KBPBESRZSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_000249 (HMI,DBP,ASN) A HONH-iBM-L-Asn-NHBn(m-NH2) Peptide-like /
Inhibitor
Ligand Explorer

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Observed:
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 33.14 α = 90.00
b = 69.43 β = 90.00
c = 72.62 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1998-04-03
  • Released Date: 1999-04-27
  • Deposition author(s): Brandstetter, H., Roedern, E.G.V., Grams, F., Engh, R.A.

Revision History

  • 2012-12-12
    Type: Other | Details: Add PRD info
  • 2011-07-13
    Type: Atom nomenclature | Details: Atom nomenclature
  • 2011-07-13
    Type: Binding sites and description | Details: Binding sites and description
  • 2011-07-13
    Type: Non-polymer description | Details: Non-polymer description
  • 2011-07-13
    Type: Function and keywords | Details: Function and keywords
  • 2011-07-13
    Type: Linkage | Details: Linkage
  • 2011-07-13
    Type: Sequence database correspondence | Details: Sequence database correspondence
  • 2011-07-13
    Type: Polymer description | Details: Changed inhibitor presentation or chemistry
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4