2HWL Hydrolase date Aug 01, 2006
title Crystal Structure Of Thrombin In Complex With Fibrinogen Gam Peptide
authors A.O.Pineda, Z.W.Chen, F.Marino, F.S.Mathews, M.W.Mosesson, E.Di C
compound source
Molecule: Prothrombin
Chain: A, C
Fragment: Thrombin Light Chain
Synonym: Coagulation Factor II
Ec: 3.4.21.5
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: F2
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_organ: Kidney
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Hpc4-Pnut

Molecule: Prothrombin
Chain: B, D
Fragment: Thrombin Heavy Chain
Synonym: Coagulation Factor II
Ec: 3.4.21.5
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: F2
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_organ: Kidney
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Hpc4-Pnut

Molecule: Fibrinogen Gamma' Peptide
Chain: P
Engineered: Yes

Synthetic: Yes
Other_details: The Protein Was Chemically Synthesized. The Of The Peptide Is Naturally Found In Homo Sapiens (Human).
symmetry Space Group: P 1 21 1
R_factor 0.214 R_Free 0.249
crystal
cell
length a length b length c angle alpha angle beta angle gamma
66.397 81.523 70.256 90.00 109.35 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand NA, NAG, PTR enzyme Hydrolase E.C.3.4.21.5 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceCrystal structure of thrombin in complex with fibrinogen gamma' peptide., Pineda AO, Chen ZW, Marino F, Mathews FS, Mosesson MW, Di Cera E, Biophys Chem. 2006 Aug 23;. PMID:16962697
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (104 Kb) [Save to disk]
  • Biological Unit Coordinates (2hwl.pdb1.gz) 98 Kb
  • LPC: Ligand-Protein Contacts for 2HWL
  • CSU: Contacts of Structural Units for 2HWL
  • Likely Quarternary Molecular Structure file(s) for 2HWL
  • Structure Factors (237 Kb)
  • Retrieve 2HWL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2HWL from S2C, [Save to disk]
  • Re-refined 2hwl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2HWL in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 2HWL
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2HWL, from MSDmotif at EBI
  • Fold representative 2hwl from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2hwl_P] [2hwl_C] [2hwl_A] [2hwl_B] [2hwl_D] [2hwl]
  • SWISS-PROT database: [P02679] [P00734]
  • Domain organization of [FIBG_HUMAN] [THRB_HUMAN] by SWISSPFAM
  • Domain found in 2HWL: [Tryp_SPc ] by SMART
  • Other resources with information on 2HWL
  • Community annotation for 2HWL at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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