1PYW

Human class II MHC protein HLA-DR1 bound to a designed peptide related to influenza virus hemagglutinin, FVKQNA(MAA)AL, in complex with staphylococcal enterotoxin C3 variant 3B2 (SEC3-3B2)

Structural Biology Knowledgebase: 1PYW SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.235
  • R-Value Work: 0.209

Literature

Macromolecules
Sequence Display for 1PYW

Classification: IMMUNE SYSTEM / PROTEIN BINDING / TOXIN

Total Structure Weight: 71960.40

Macromolecule Entities
Molecule Chains Length Organism Details
HLA class II histocompatibility antigen, DR alpha chain A 182 Homo sapiens Fragment: Extracellular domain of HLA-DRA
Gene Name(s): HLA-DRA Gene View HLA-DRA1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
HLA class II histocompatibility antigen, DR-1 beta chain B 190 Homo sapiens Fragment: Extracellular domain of HLA-DRB1
Gene Name(s): HLA-DRB1 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
9-residue influenza virus hemagglutinin related peptide FVKQNA(MAA)AL C 10 synthetic Mutation: Y1F, T6A, L7X, K8A
Enterotoxin type C-3 D 239 Staphylococcus aureus Fragment: residues 28-266
Mutation: K43S, L45F, A46K, H47W
Gene Name(s): entC3 SAV2009
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
ACE
Query on ACE
C NON-POLYMER C2 H4 O --
MAA
Query on MAA
C L-peptide linking C4 H9 N O2 ALA

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.235
  • R-Value Work: 0.209
  • Space Group: H 3
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 172.51 α = 90.00
b = 172.51 β = 90.00
c = 121.65 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-07-09
  • Released Date: 2003-12-09
  • Deposition author(s): Zavala-Ruiz, Z., Sundberg, E.J., Stone, J.D., DeOliveira, D.B., Chan, I.C., Svendsen, J., Mariuzza, R.A., Stern, L.J.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update