2G9H

Crystal Structure of Staphylococcal Enterotoxin I (SEI) in Complex with a Human MHC class II Molecule

Structural Biology Knowledgebase: 2G9H SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.213

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2G9H

Classification: IMMUNE SYSTEM

Total Structure Weight: 70570.11

Macromolecule Entities
Molecule Chains Length Organism Details
HLA class II histocompatibility antigen, DR alpha chain A 182 Homo sapiens Gene Name(s): HLA-DRA Gene View HLA-DRA1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
HLA class II histocompatibility antigen, DRB1-1 beta chain B 190 Homo sapiens Gene Name(s): HLA-DRB1 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Hemagglutinin C 13 Influenza a virus Fragment: peptide, 306-318 residues
Gene Name(s): HA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
extracellular enterotoxin type I D 218 Staphylococcus aureus Mutation: V24L, T25I, I31S, T41I, A114S, N144S, N163K, N172D, L187V
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
EPE
Query on EPE

A 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
HEPES (Synonym)
C8 H18 N2 O4 S
JKMHFZQWWAIEOD-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, C, D SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DIO
Query on DIO

A 1,4-DIETHYLENE DIOXIDE
C4 H8 O2
RYHBNJHYFVUHQT-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

D ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.213
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 150.40 α = 90.00
b = 99.93 β = 92.00
c = 72.92 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-03-06
  • Released Date: 2006-07-11
  • Deposition author(s): Fernandez, M.M., Guan, R., Malchiodi, E.L., Mariuzza, R.A.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor