1UVQ

Crystal structure of HLA-DQ0602 in complex with a hypocretin peptide

Structural Biology Knowledgebase: 1UVQ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.205
  • R-Value Work: 0.189

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1UVQ

Classification: IMMUNE SYSTEM

Total Structure Weight: 49785.89

Macromolecule Entities
Molecule Chains Length Organism Details
HLA CLASS II HISTOCOMPATIBILITY ANTIGEN A 197 Homo sapiens Gene Name(s): HLA-DQA1 Gene View
HLA CLASS II HISTOCOMPATIBILITY ANTIGEN B 198 Homo sapiens Gene Name(s): HLA-DQB1 Gene View HLA-DQB
OREXIN C 33 Homo sapiens Details: CHAIN C IS COVALENTLY CONNECTED AT THE N-TERMINUS OF CHAIN B VIA A GLYCINE-RICH LINKER. AS PER DEFINITION FOR THE MHC CLASS II MOLECULES, THE CHAINS OF THE PEPTIDE LIGAND (CHAIN C) AND THE BETA-CHAIN (CHAIN B) SHOULD BE DIFFERENT.
Gene Name(s): HCRT Gene View OX PPORX PPOX Gene View

Small Molecules
Ligands 6 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAG
Query on NAG

A, B N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BMA
Query on BMA

B BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FUC
Query on FUC

B ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GLY
Query on GLY

A GLYCINE
C2 H5 N O2
DHMQDGOQFOQNFH-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACY
Query on ACY

B ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.205
  • R-Value Work: 0.189
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 102.08 α = 90.00
b = 129.30 β = 90.00
c = 40.62 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-01-22
  • Released Date: 2004-02-05
  • Deposition author(s): Siebold, C., Hansen, B.E., Wyer, J.R., Harlos, K., Esnouf, R.E., Svejgaard, A., Bell, J.I., Strominger, J.L., Jones, E.Y., Fugger, L.

Revision History

  • 2015-10-21
    Type: Refinement description | Details: REMARK 3
  • 2015-10-21
    Type: Non-polymer description | Details: HETSYN,FORMUL
  • 2015-10-21
    Type: Other | Details: REMARK 525,HEADER
  • 2015-10-21
    Type: Version format compliance | Details: REMARK 4
  • 2015-10-21
    Type: Function and keywords | Details: KEYWDS
  • 2015-10-21
    Type: Source and taxonomy | Details: SOURCE
  • 2015-10-21
    Type: Biological assembly | Details: REMARK 300,REMARK 350
  • 2015-10-21
    Type: Binding sites and description | Details: REMARK 800,SITE