3PGC	Immune System	date	Nov 01, 2010
title	Crystal Structure Of Hla-Dr1 With Clip106-120, Flipped Pepti Orientation
authors	S.Gunther, A.Schlundt, J.Sticht, Y.Roske, U.Heinemann, K.H.Wiesm G.Jung, K.Falk, O.Rotzschke, C.Freund
compound		source
Molecule: Hla Class II Histocompatibility Antigen, Dr Alpha Chain: A, D Fragment: Unp Residues 26-217 Synonym: Mhc Class II Antigen Dra Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hla-Dra, Hla-Dra1 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet11a
Molecule: Hla Class II Histocompatibility Antigen, Drb1-1 B Chain: B, E Fragment: Unp Residues 30-227 Synonym: Mhc Class II Antigen Drb11, Dr-1, Dr1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hla-Drb1 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet24d
Molecule: Hla Class II Histocompatibility Antigen Gamma Cha Chain: C, F Fragment: Unp Residues 106-120 Synonym: Hla-Dr Antigens-Associated Invariant Chain, Ia Ant Associated Invariant Chain, II, P33; Engineered: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
symmetry	Space Group: P 31 2 1	R_factor 0.198 R_Free 0.250
crystal cell	length a length b length c angle alpha angle beta angle gamma 138.146 138.146 104.520 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.66 Å
ligand	GOL, PEG	enzyme
Gene Ontology	Chain Function Process Component A, D E, B
Primary reference	Bidirectional binding of invariant chain peptides to an MHC class II molecule., Gunther S, Schlundt A, Sticht J, Roske Y, Heinemann U, Wiesmuller KH, Jung G, Falk K, Rotzschke O, Freund C, Proc Natl Acad Sci U S A. 2010 Nov 29. PMID:21115828

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (131 Kb) [Save to disk] Biological Unit Coordinates (3pgc.pdb1.gz) 65 Kb Biological Unit Coordinates (3pgc.pdb2.gz) 65 Kb LPC: Ligand-Protein Contacts for 3PGC CSU: Contacts of Structural Units for 3PGC Structure Factors (259 Kb) Retrieve 3PGC in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3PGC from S2C, [Save to disk] Re-refined 3pgc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3PGC 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 3PGC

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 3PGC, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3pgc_A] [3pgc_C] [3pgc_D] [3pgc] [3pgc_E] [3pgc_B] [3pgc_F] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 3PGC: [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART

Other resources with information on 3PGC

Community annotation for 3PGC at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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