1NL2 Hydrolase date Jan 06, 2003
title Bovine Prothrombin Fragment 1 In Complex With Calcium And Lysophosphotidylserine
authors M.Huang, G.Huang, B.Furie, B.Seaton, B.C.Furie
compound source
Molecule: Prothrombin
Chain: A
Fragment: Fragment 1 (Residues 1-156)
Ec: 3.4.21.5
Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
symmetry Space Group: P 21 21 21
R_factor 0.236 R_Free 0.274
crystal
cell
length a length b length c angle alpha angle beta angle gamma
38.894 53.217 128.959 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand CA, CGU, CL, LPS, NAG enzyme Hydrolase E.C.3.4.21.5 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis of membrane binding by Gla domains of vitamin K-dependent proteins., Huang M, Rigby AC, Morelli X, Grant MA, Huang G, Furie B, Seaton B, Furie BC, Nat Struct Biol 2003 Sep;10(9):751-6. Epub 2003 Aug 17. PMID:12923575
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (35 Kb) [Save to disk]
  • Biological Unit Coordinates (1nl2.pdb1.gz) 28 Kb
  • LPC: Ligand-Protein Contacts for 1NL2
  • CSU: Contacts of Structural Units for 1NL2
  • Likely Quarternary Molecular Structure file(s) for 1NL2
  • Retrieve 1NL2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1NL2 from S2C, [Save to disk]
  • View 1NL2 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 1NL2
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1NL2, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1nl2a2, region A:1-65 [Jmol] [rasmolscript] [script source]
        - Domain d1nl2a1, region A:66-146 [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1nl2_A] [1nl2]
  • SWISS-PROT database: [P00735]
  • Domain organization of [THRB_BOVIN] by SWISSPFAM
  • Domains found in 1NL2: [GLA] [KR ] by SMART
  • Other resources with information on 1NL2
  • Community annotation for 1NL2 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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