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
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
  • Alignments of the sequence of 2HWL with the sequences similar proteins can be viewed for 2HWL's classification [FIBG_HUMAN] [THRB_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [FIBG_HUMAN] [THRB_HUMAN] at ProtoMap. Click on the Cluster number.
  • 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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