2SEB	Complex (Mhc Class Ii Superantigen)	date	Oct 16, 1997
title	X-Ray Crystal Structure Of Hla-Dr4 Complexed With A Peptide Collagen II
authors	A.Dessen, C.M.Lawrence, S.Cupo, D.M.Zaller, D.C.Wiley
compound		source
Molecule: Hla Class II Histocompatibility Antigen Chain: A Fragment: Extracellular Domain Synonym: Hla-Dr4 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Drosophila Expression_system_common: Fruit Flies Expression_system_taxid: 7215 Expression_system_cellular_location: S2 Expression_system_vector: Prmha-3
Molecule: Hla Class II Histocompatibility Antigen Chain: B Fragment: Extracellular Domain Synonym: Hla-Dr4 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Drosophila Expression_system_common: Fruit Flies Expression_system_taxid: 7215 Expression_system_cellular_location: S2 Expression_system_vector: Prmha-3
Molecule: Enterotoxin Type B Chain: D Synonym: Seb, Superantigen		Organism_scientific: Staphylococcus Aureus Organism_taxid: 1280
Molecule: Peptide From Collagen II Chain: E		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
symmetry	Space Group: P 21 21 21	R_factor 0.229 R_Free 0.280
crystal cell	length a length b length c angle alpha angle beta angle gamma 78.530 100.280 100.870 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	NAG	enzyme
related structures	by homologous chain: 1CK1, 1JWS, 1R5V, 1T5X
Gene Ontology	Chain Function Process Component A B D toxin activity
Primary reference	X-ray crystal structure of HLA-DR4 (DRA*0101, DRB1*0401) complexed with a peptide from human collagen II., Dessen A, Lawrence CM, Cupo S, Zaller DM, Wiley DC, Immunity 1997 Oct;7(4):473-81. PMID:9354468

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (103 Kb) [Save to disk] Biological Unit Coordinates (2seb.pdb1.gz) 97 Kb LPC: Ligand-Protein Contacts for 2SEB CSU: Contacts of Structural Units for 2SEB Likely Quarternary Molecular Structure file(s) for 2SEB Structure Factors (217 Kb) Retrieve 2SEB in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2SEB from S2C, [Save to disk] Re-refined 2seb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2SEB 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 2SEB

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 2SEB, from MSDmotif at EBI Genome occurence of 2SEB's fold from GeneCensus Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d2seba2, region A:1-81 [Jmol] [rasmolscript] [script source]     - Domain d2seba1, region A:82-180 [Jmol] [rasmolscript] [script source]     - Domain d2sebb2, region B:2-92 [Jmol] [rasmolscript] [script source]     - Domain d2sebb1, region B:93-190 [Jmol] [rasmolscript] [script source]     - Domain d2sebd2, region D:122-236 [Jmol] [rasmolscript] [script source]     - Domain d2sebd1, region D:2-121 [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2seb_A] [2seb_E] [2seb_D] [2seb_B] [2seb] SWISS-PROT database: [P13760] [P02458] [P01903] [P01552] Domain organization of [2B14_HUMAN] [CO2A1_HUMAN] [DRA_HUMAN] [ETXB_STAAU] by SWISSPFAM Domains found in 2SEB: [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART

Other resources with information on 2SEB

Community annotation for 2SEB at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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