2P5E

Crystal Structures of High Affinity Human T-Cell Receptors Bound to pMHC Reveal Native Diagonal Binding Geometry


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.89 Å
  • R-Value Free: 0.236
  • R-Value Work: 0.178

Literature

Macromolecules
Sequence Display for 2P5E

Classification: IMMUNE SYSTEM

Total Structure Weight: 95063.83

Macromolecule Entities
Molecule Chains Length Organism Details
HLA class I histocompatibility antigen, A-2 alpha chain A 276 Homo sapiens Fragment: EXTRACELLULAR DOMAINS ALPHA 1, ALPHA2 AND ALPHA3, RESIDUES 25-299
Gene Name(s): HLA-A Gene View HLAA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Beta-2-microglobulin B 100 Homo sapiens Fragment: BETA-2 MICROGLOBULIN, RESIDUES 21-119
Mutation: K91C
Gene Name(s): B2M Gene View CDABP0092 HDCMA22P
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Cancer/testis antigen 1B C 9 Homo sapiens Fragment: RESIDUES 157-165
Gene Name(s): CTAG1A Gene View CTAG CTAG1 ESO1 LAGE2 LAGE2A CTAG1B Gene View LAGE2B
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
T-Cell Receptor, Alpha Chain D 195 Homo sapiens Gene Name(s): TRAC TCRA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Hypothetical protein E 242 Homo sapiens

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
EPE
Query on EPE

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

B, D, E SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B, E GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IPA
Query on IPA

C ISOPROPYL ALCOHOL
2-PROPANOL (Synonym)
C3 H8 O
KFZMGEQAYNKOFK-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.89 Å
  • R-Value Free: 0.236
  • R-Value Work: 0.178
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 74.00 α = 90.00
b = 51.77 β = 98.24
c = 118.27 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-03-15
  • Released Date: 2007-09-25
  • Deposition author(s): Sami, M., Rizkallah, P.J., Dunn, S., Li, Y., Moysey, R., Vuidepot, A., Baston, E., Todorov, P., Molloy, P., Gao, F., Boulter, J.M., Jakobsen, B.K.

Revision History

  • Version 1_0: 2007-09-25

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Advisory, Derived calculations, Version format compliance