1E88 Cell Adhesion date Sep 18, 2000
title Solution Structure Of 6f11f22f2, A Compact Three-Module Fragment Of The Gelatin-Binding Domain Of Human Fibronectin
authors A.R.Pickford, S.P.Smith, D.Staunton, J.Boyd, I.D.Campbell
compound source
Molecule: Fibronectin
Chain: A
Fragment: 6f11f22f2, Residues 305-464
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cellular_location: Extracellular
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
Expression_system_strain: Gs115
Expression_system_cellular_location: Secreted
Expression_system_vector_type: Integrated Plasmid
Expression_system_plasmid: Ppic9k
methodSolution NMR
ligand NAG enzyme
related structures by homologous chain: 1E8B, 2FN2
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe hairpin structure of the (6)F1(1)F2(2)F2 fragment from human fibronectin enhances gelatin binding., Pickford AR, Smith SP, Staunton D, Boyd J, Campbell ID, EMBO J 2001 Apr 2;20(7):1519-29. PMID:11285216
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (806 Kb) [Save to disk]
  • Biological Unit Coordinates (1e88.pdb1.gz) 42 Kb
  • LPC: Ligand-Protein Contacts for 1E88
  • CSU: Contacts of Structural Units for 1E88
  • Original NMR restraints for 1E88 from PDB
  • Retrieve 1E88 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1E88 from S2C, [Save to disk]
  • View 1E88 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 1E88
  • 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 1E88, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1e88a3, region A:1-41 [Jmol] [rasmolscript] [script source]
        - Domain d1e88a2, region A:102-160 [Jmol] [rasmolscript] [script source]
        - Domain d1e88a1, region A:42-101 [Jmol] [rasmolscript] [script source]
  • Fold representative 1e88 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: [1e88] [1e88_A]
  • SWISS-PROT database: [P02751]
  • Domain organization of [FINC_HUMAN] by SWISSPFAM
  • Domains found in 1E88: [FN1] [FN2 ] by SMART
  • Other resources with information on 1E88
  • Community annotation for 1E88 at PDBWiki (http://pdbwiki.org)
  • NMR Ensemble (OLDERADO: core, domain and representative structure database)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1E88 from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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