3NXP Hydrolase date Jul 14, 2010
title Crystal Structure Of Human Prethrombin-1
authors Z.Chen, L.A.Bush-Pelc, E.Di Cera
compound source
Molecule: Prethrombin-1
Chain: A
Fragment: Unp Residues 199-622
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_strain: Bhk
Expression_system_vector: Hpc4 Pnut
symmetry Space Group: P 21 21 21
R_factor 0.198 R_Free 0.226
crystal
cell
length a length b length c angle alpha angle beta angle gamma
67.893 81.006 88.463 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand GOL, NAG, TRS enzyme Hydrolase E.C.3.4.21.5 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structure of prethrombin-1., Chen Z, Pelc LA, Di Cera E, Proc Natl Acad Sci U S A. 2010 Oct 25. PMID:20974933
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (142 Kb) [Save to disk]
  • Biological Unit Coordinates (3nxp.pdb1.gz) 135 Kb
  • LPC: Ligand-Protein Contacts for 3NXP
  • CSU: Contacts of Structural Units for 3NXP
  • Structure Factors (369 Kb)
  • Retrieve 3NXP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3NXP from S2C, [Save to disk]
  • Re-refined 3nxp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3NXP 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 3NXP
  • 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
  • 3D motif for 3NXP, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3nxp_A] [3nxp]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3NXP: [KR] [Tryp_SPc ] by SMART
  • Other resources with information on 3NXP
  • Community annotation for 3NXP at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science