3PGC

Crystal Structure of HLA-DR1 with CLIP106-120, flipped peptide orientation

Structural Biology Knowledgebase: 3PGC SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.66 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.198

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3PGC

Classification: IMMUNE SYSTEM

Total Structure Weight: 94549.50

Macromolecule Entities
Molecule Chains Length Organism Details
HLA class II histocompatibility antigen, DR alpha chain A, D 193 Homo sapiens Fragment: UNP residues 26-217
Gene Name(s): HLA-DRA Gene View HLA-DRA1
HLA class II histocompatibility antigen, DRB1-1 beta chain B, E 199 Homo sapiens Fragment: UNP residues 30-227
Gene Name(s): HLA-DRB1 Gene View
HLA class II histocompatibility antigen gamma chain C, F 15 Homo sapiens Fragment: UNP residues 106-120
Gene Name(s): CD74 Gene View DHLAG

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

D DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

D GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.66 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.198
  • Space Group: P 31 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 138.15 α = 90.00
b = 138.15 β = 90.00
c = 104.52 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-11-01
  • Released Date: 2010-12-08
  • Deposition author(s): Gunther, S., Schlundt, A., Sticht, J., Roske, Y., Heinemann, U., Wiesmuller, K.-H., Jung, G., Falk, K., Rotzschke, O., Freund, C.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4