1NL0 Immune System date Jan 06, 2003
title Crystal Structure Of Human Factor Ix Gla Domain In Complex Of An Inhibitory Antibody, 10c12
authors M.Huang, B.C.Furie, B.Furie
compound source
Molecule: Anti-Factor Ix Antibody, 10c12, Chain L
Chain: L
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: 10c12
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Anti-Factor Ix Antibody, 10c12, Chain H
Chain: H
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: 10c12
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Factor Ix
Chain: G
Fragment: Gla Domain
Engineered: Yes

Synthetic: Yes
Other_details: The Protein Was Chemically Synthesized. The Sequence Of The Protein Is Naturally Found In Homo Sapiens.
symmetry Space Group: C 1 2 1
R_factor 0.233 R_Free 0.270
crystal
cell
length a length b length c angle alpha angle beta angle gamma
105.089 71.614 90.867 90.00 119.14 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand CA, CGU, SO4 enzyme
related structures by homologous chain: 1BJM, 1DCL, 1IGM, 1NGY, 1OM3, 1U95
Gene
Ontology
ChainFunctionProcessComponent
G


Primary referenceCrystal structure of the calcium-stabilized human factor IX Gla domain bound to a conformation-specific anti-factor IX antibody., Huang M, Furie BC, Furie B, J Biol Chem 2004 Apr 2;279(14):14338-46. Epub 2004 Jan 13. PMID:14722079
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (85 Kb) [Save to disk]
  • Biological Unit Coordinates (1nl0.pdb1.gz) 78 Kb
  • Biological Unit Coordinates (1nl0.pdb2.gz) 153 Kb
  • LPC: Ligand-Protein Contacts for 1NL0
  • CSU: Contacts of Structural Units for 1NL0
  • Likely Quarternary Molecular Structure file(s) for 1NL0
  • Retrieve 1NL0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1NL0 from S2C, [Save to disk]
  • View 1NL0 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 1NL0
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1NL0, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1nl0g_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1nl0h1, region H:1-113 [Jmol] [rasmolscript] [script source]
        - Domain d1nl0h2, region H:114-217 [Jmol] [rasmolscript] [script source]
        - Domain d1nl0l1, region L:1-108 [Jmol] [rasmolscript] [script source]
        - Domain d1nl0l2, region L:109-210 [Jmol] [rasmolscript] [script source]
  • Fold representative 1nl0 from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1nl0_G] [1nl0] [1nl0_H] [1nl0_L]
  • SWISS-PROT database: [P00740]
  • Domain organization of [FA9_HUMAN] by SWISSPFAM
  • Domains found in 1NL0: [GLA] [IG_like] [IGv ] by SMART
  • Other resources with information on 1NL0
  • Community annotation for 1NL0 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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