3CUP Immune System date Apr 16, 2008
title Crystal Structure Of The Mhc Class II Molecule I-Ag7 In Comp The Peptide Gad221-235
authors A.L.Corper, K.Yoshida, L.Teyton, I.A.Wilson
compound source
Molecule: H-2 Class II Histocompatibility Antigen, A-D Alph
Chain: A
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: H2-Aa
Expression_system: Drosophila Melanogaster
Expression_system_common: Fruit Fly
Expression_system_taxid: 7227
Expression_system_strain: S2 Cells
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Prmha-3

Molecule: Mhc Class II H2-Ia-Beta Chain Linked To Gad221-23
Chain: B
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: H2-Ab1
Expression_system: Drosophila Melanogaster
Expression_system_common: Fruit Fly
Expression_system_taxid: 7227
Expression_system_strain: S2 Cells
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Prmha-3
symmetry Space Group: P 43 21 2
R_factor 0.232 R_Free 0.286
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.832 55.832 338.834 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.09 Å
ligand EPE, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (129 Kb) [Save to disk]
  • Biological Unit Coordinates (3cup.pdb1.gz) 124 Kb
  • LPC: Ligand-Protein Contacts for 3CUP
  • CSU: Contacts of Structural Units for 3CUP
  • Likely Quarternary Molecular Structure file(s) for 3CUP
  • Structure Factors (97 Kb)
  • Retrieve 3CUP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3CUP from S2C, [Save to disk]
  • Re-refined 3cup structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3CUP in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3CUP
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3CUP, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3cup_B] [3cup_A] [3cup]
  • SWISS-PROT database: [P04228] [Q31135]
  • Domain organization of [HA2D_MOUSE] [Q31135_MOUSE] by SWISSPFAM
  • Domains found in 3CUP: [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART
  • Other resources with information on 3CUP
  • Community annotation for 3CUP at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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