3EJH Cell Adhesion date Sep 18, 2008
title Crystal Structure Of The Fibronectin 8-9fni Domain Pair In C With A Type-I Collagen Peptide
authors M.C.Erat, E.D.Lowe, I.D.Campbell, I.Vakonakis
compound source
Molecule: Fibronectin
Chain: A, B
Fragment: 8-9fni
Synonym: Fn, Cold-Insoluble Globulin, Cig, Ugl-Y1, Ugl-Y2,
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Fn, Fn1
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
Expression_system_strain: X-33
Expression_system_vector_type: Genomic Integration

Molecule: Collagen Type-I A1 Chain
Chain: E, F
Fragment: Collagenase Site C-Terminal Peptide
Engineered: Yes

Synthetic: Yes
Other_details: The Peptide Was Chemically Synthesized. The Of The Peptide Is Naturally Found In Homo Sapiens (Human) T Collagen A1 Chain.
symmetry Space Group: P 31 2 1
R_factor 0.209 R_Free 0.242
crystal
cell
length a length b length c angle alpha angle beta angle gamma
56.840 56.840 150.220 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.10 Å
ligand GOL, HYP, NAG enzyme
Primary referenceIdentification and structural analysis of type I collagen sites in complex with fibronectin fragments., Erat MC, Slatter DA, Lowe ED, Millard CJ, Farndale RW, Campbell ID, Vakonakis I, Proc Natl Acad Sci U S A. 2009 Mar 17;106(11):4195-200. Epub 2009 Feb 27. PMID:19251642
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (89 Kb) [Save to disk]
  • Biological Unit Coordinates (3ejh.pdb1.gz) 42 Kb
  • Biological Unit Coordinates (3ejh.pdb2.gz) 42 Kb
  • LPC: Ligand-Protein Contacts for 3EJH
  • CSU: Contacts of Structural Units for 3EJH
  • Likely Quarternary Molecular Structure file(s) for 3EJH
  • Structure Factors (735 Kb)
  • Retrieve 3EJH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3EJH from S2C, [Save to disk]
  • Re-refined 3ejh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3EJH 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 3EJH
  • 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 3EJH, from MSDmotif at EBI
  • Fold representative 3ejh from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ejh_F] [3ejh_A] [3ejh_B] [3ejh_E] [3ejh]
  • SWISS-PROT database: [P02452] [P02751]
  • Domain organization of [CO1A1_HUMAN] [FINC_HUMAN] by SWISSPFAM
  • Domain found in 3EJH: [FN1 ] by SMART
  • Alignments of the sequence of 3EJH with the sequences similar proteins can be viewed for 3EJH's classification [CO1A1_HUMAN] [FINC_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 [CO1A1_HUMAN] [FINC_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3EJH
  • Community annotation for 3EJH 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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