2G9H Immune System date Mar 06, 2006
title Crystal Structure Of Staphylococcal Enterotoxin I (Sei) In C With A Human Mhc Class II Molecule
authors M.M.Fernandez, R.Guan, E.L.Malchiodi, R.A.Mariuzza
compound source
Molecule: Hla Class II Histocompatibility Antigen, Dr Alpha
Chain: A
Synonym: Mhc Class II Antigen Dra
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-Dra
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pt7-7

Molecule: Hla Class II Histocompatibility Antigen, Drb1-1 B
Chain: B
Synonym: Mhc Class I Antigen Drb11, Dr-1, Dr1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-Drb1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pt7-7

Molecule: Hemagglutinin
Chain: C
Fragment: Peptide, 306-318 Residues
Engineered: Yes

Synthetic: Yes
Other_details: This Sequence Occurs Nuturally In Influenza

Molecule: Extracellular Enterotoxin Type I
Chain: D

Organism_scientific: Staphylococcus Aureus
Organism_taxid: 1280
Strain: Fc30 Clinical Isolate
symmetry Space Group: C 1 2 1
R_factor 0.213 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
150.395 99.933 72.917 90.00 92.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand DIO, EPE, SO4, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


D


Primary referenceCrystal structure of staphylococcal enterotoxin I (SEI) in complex with a human major histocompatibility complex class II molecule., Fernandez MM, Guan R, Swaminathan CP, Malchiodi EL, Mariuzza RA, J Biol Chem. 2006 Sep 1;281(35):25356-64. Epub 2006 Jul 6. PMID:16829512
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (115 Kb) [Save to disk]
  • Biological Unit Coordinates (2g9h.pdb1.gz) 109 Kb
  • LPC: Ligand-Protein Contacts for 2G9H
  • CSU: Contacts of Structural Units for 2G9H
  • Likely Quarternary Molecular Structure file(s) for 2G9H
  • Structure Factors (589 Kb)
  • Retrieve 2G9H in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2G9H from S2C, [Save to disk]
  • Re-refined 2g9h structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2G9H 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 2G9H
  • 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 2G9H, from MSDmotif at EBI
  • Fold representative 2g9h from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2g9h] [2g9h_C] [2g9h_A] [2g9h_B] [2g9h_D]
  • SWISS-PROT database: [P04229] [P01903] [P04664] [O85383]
  • Domain organization of [2B11_HUMAN] [DRA_HUMAN] [HEMA_I69A0] [O85383_STAAU] by SWISSPFAM
  • Domains found in 2G9H: [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART
  • Alignments of the sequence of 2G9H with the sequences similar proteins can be viewed for 2G9H's classification [2B11_HUMAN] [DRA_HUMAN] [HEMA_I69A0] [O85383_STAAU] 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 [2B11_HUMAN] [DRA_HUMAN] [HEMA_I69A0] [O85383_STAAU] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2G9H
  • Community annotation for 2G9H 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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