1CVW

Crystal structure of active site-inhibited human coagulation factor VIIA (DES-GLA)

Structural Biology Knowledgebase: 1CVW SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.239
  • R-Value Work: 0.205

Literature

Macromolecules
Sequence Display for 1CVW

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 34802.51

Macromolecule Entities
Molecule Chains Length Organism Details
COAGULATION FACTOR VIIA (LIGHT CHAIN) (DES-GLA) L 55 Homo sapiens EC#: 3.4.21.21 IUBMB
Gene Name(s): F7 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
COAGULATION FACTOR VIIA (HEAVY CHAIN) (DES-GLA) H 254 Homo sapiens EC#: 3.4.21.21 IUBMB
Gene Name(s): F7 Gene View

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

H N-{[5-(dimethylamino)naphthalen-1-yl]sulfonyl}- L-alpha-glutamyl-N-[(2S,3S)-6-carbamimidamido- 1-chloro-2-hydroxyhexan-3-yl]glycinamide
1,5-DANSYL-GLU-GLY-ARG-CHLOROMETHYL KETONE, bound form (Synonym)
C26 H38 Cl N7 O7 S
AKFRXQNHCCSRJN-IRFCIJBXSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

H CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_000287
Query on PRD_000287
H dansyl-Glu-Gly-Arg chloromethyl ketone Peptide-like /
Inhibitor
Ligand Explorer Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.239
  • R-Value Work: 0.205
  • Space Group: P 41 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 94.85 α = 90.00
b = 94.85 β = 90.00
c = 114.30 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-08-24
  • Released Date: 1999-08-31
  • Deposition author(s): Kemball-Cook, G., Johnson, D.J.D., Tuddenham, E.G.D., Harlos, K.

Revision History

  • 2013-02-27
    Type: Non-polymer description | Details: inhibitor remediated from sequence (chain J) to component 0GE
  • 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
  • 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