1GMO

CRYSTAL STRUCTURES OF NK1-HEPARIN COMPLEXES REVEAL THE BASIS FOR NK1 ACTIVITY AND ENABLE ENGINEERING OF POTENT AGONISTS OF THE MET RECEPTOR

Structural Biology Knowledgebase: 1GMO SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.295
  • R-Value Work: 0.254

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1GMO

Classification: HORMONE

Total Structure Weight: 184296.78

Macromolecule Entities
Molecule Chains Length Organism Details
HEPATOCYTE GROWTH FACTOR A, B, C..., D, E, F, G, HA, B, C, D, E, F, G, H 183 Homo sapiens Fragment: NK1
Mutation: A29V, N72D
Details: NK1 DIMER IN COMPLEX WITH HEPARIN MOLECULE
Gene Name(s): HGF Gene View HPTA

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SGN
Query on SGN

A, B, C, F, G N,O6-DISULFO-GLUCOSAMINE
C6 H13 N O11 S2
DQTRACMFIGDHSN-UKFBFLRUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IDS
Query on IDS

A, B, C, F, G 2-O-sulfo-alpha-L-idopyranuronic acid
O2-SULFO-GLUCURONIC ACID (Synonym)
C6 H10 O10 S
COJBCAMFZDFGFK-VCSGLWQLSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EPE
Query on EPE

A, B, C, D, E, F, G, H 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
HEPES (Synonym)
C8 H18 N2 O4 S
JKMHFZQWWAIEOD-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B, C, D, E, F, H SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.295
  • R-Value Work: 0.254
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 179.70 α = 90.00
b = 174.10 β = 90.00
c = 59.90 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-09-20
  • Released Date: 2001-10-02
  • Deposition author(s): Lietha, D., Chirgadze, D.Y., Mulloy, B., Blundell, T.L., Gherardi, E.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4