1FFO Immune System Signaling Protein date Jul 25, 2000
title Crystal Structure Of Murine Class I H-2db Complexed With Syn Peptide Gp33 (C9mk1a)
authors B.Wang, A.Sharma, R.Maile, M.Saad, E.J.Collins, J.A.Frelinger
compound source
Molecule: H-2 Class I Histocompatibility Antigen, D-B, Alph
Chain: A, D
Fragment: Extracellular Portion
Synonym: H-2d(B)
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Plm1

Molecule: Beta-2 Microglobulin Beta Chain
Chain: B, E
Fragment: Beta-2 Microglobulin
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Bl21

Molecule: Peptide With Sequence Ala-Ala-Val-Tyr-Asn-Phe-Ala
Chain: C, F
Fragment: Gp33 Peptide With Substitution
Engineered: Yes
Mutation: Yes
Other_details: Synthetic

Synthetic: Yes
Other_details: The Peptide Was Synthesized At The Peptide S Facility Of University Of North Carolina At Chapel Hill
symmetry Space Group: P 1
R_factor 0.246 R_Free 0.292
crystal
cell
length a length b length c angle alpha angle beta angle gamma
47.219 68.642 81.531 74.57 73.08 69.86
method X-Ray Diffractionresolution 2.65 Å
related structures by homologous chain: 1AKJ, 1CD1, 1CG9
Gene
Ontology
ChainFunctionProcessComponent
E, B


Primary referencePeptidic termini play a significant role in TCR recognition., Wang B, Sharma A, Maile R, Saad M, Collins EJ, Frelinger JA, J Immunol. 2002 Sep 15;169(6):3137-45. PMID:12218131
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (131 Kb) [Save to disk]
  • Biological Unit Coordinates (1ffo.pdb1.gz) 65 Kb
  • Biological Unit Coordinates (1ffo.pdb2.gz) 65 Kb
  • CSU: Contacts of Structural Units for 1FFO
  • Likely Quarternary Molecular Structure file(s) for 1FFO
  • Structure Factors (277 Kb)
  • Retrieve 1FFO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1FFO from S2C, [Save to disk]
  • Re-refined 1ffo structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1FFO 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 1FFO
  • 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 1FFO, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ffoa1, region A:182-274 [Jmol] [rasmolscript] [script source]
        - Domain d1ffoa2, region A:2-181 [Jmol] [rasmolscript] [script source]
        - Domain d1ffob_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1ffod1, region D:182-274 [Jmol] [rasmolscript] [script source]
        - Domain d1ffod2, region D:2-181 [Jmol] [rasmolscript] [script source]
        - Domain d1ffoe_, region E [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: [1ffo_F] [1ffo] [1ffo_D] [1ffo_C] [1ffo_B] [1ffo_E] [1ffo_A]
  • SWISS-PROT database: [P01887] [P01899]
  • Domain organization of [B2MG_MOUSE] [HA11_MOUSE] by SWISSPFAM
  • Domain found in 1FFO: [IGc1 ] by SMART
  • Other resources with information on 1FFO
  • Community annotation for 1FFO 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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