1SEB	Complex (Mhc Ii Peptide Toxin)	date	Nov 26, 1995
title	Complex Of The Human Mhc Class II Glycoprotein Hla-Dr1 And The Bacterial Superantigen Seb
authors	T.S.Jardetzky, J.H.Brown, J.C.Gorga, L.J.Stern, R.G.Urban, Y.I.Chi, C.Stauffacher, J.L.Strominger, D.C.Wiley
compound		source
Molecule: Hla Class II Histocompatibility Antigen Chain: A, E Fragment: Extracellular Domain Synonym: Hla-Dr1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Cell_line: Lg-2 Expression_system: Homo Sapiens Expression_system_common: Human Expression_system_taxid: 9606 Expression_system_cell_line: Lg-2 Cells
Molecule: Hla Class II Histocompatibility Antigen Chain: B, F Fragment: Extracellular Domain Synonym: Hla-Dr1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Cell_line: Lg-2 Expression_system: Homo Sapiens Expression_system_common: Human Expression_system_taxid: 9606 Expression_system_cell_line: Lg-2 Cells
Molecule: Endogenous Peptide Model, Poly-Ala Chain: C, G Other_details: Superposition Of Many Different Peptides		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
Molecule: Enterotoxin Type B Chain: D, H Synonym: Seb		Organism_scientific: Staphylococcus Aureus Organism_taxid: 1280 Cell_line: Lg-2
symmetry	Space Group: P 21 21 21	R_factor 0.257 R_Free 0.327
crystal cell	length a length b length c angle alpha angle beta angle gamma 95.000 114.700 149.800 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.70 Å
related structures	by homologous chain: 1A6A, 1IEB, 1SE2
Gene Ontology	Chain Function Process Component H, D pathogenesis extracellular region
Primary reference	Three-dimensional structure of a human class II histocompatibility molecule complexed with superantigen., Jardetzky TS, Brown JH, Gorga JC, Stern LJ, Urban RG, Chi YI, Stauffacher C, Strominger JL, Wiley DC, Nature 1994 Apr 21;368(6473):711-8. PMID:8152483

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (197 Kb) [Save to disk] Biological Unit Coordinates (1seb.pdb1.gz) 191 Kb CSU: Contacts of Structural Units for 1SEB Likely Quarternary Molecular Structure file(s) for 1SEB Retrieve 1SEB in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1SEB from S2C, [Save to disk]

View 1SEB 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 1SEB

Cartoon representation from PDB Cartoon Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 1SEB, from MSDmotif at EBI Genome occurence of 1SEB's fold from GeneCensus Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1seba2, region A:1-81 [Jmol] [rasmolscript] [script source]     - Domain d1seba1, region A:82-181 [Jmol] [rasmolscript] [script source]     - Domain d1sebb2, region B:1-92 [Jmol] [rasmolscript] [script source]     - Domain d1sebb1, region B:93-192 [Jmol] [rasmolscript] [script source]     - Domain d1sebd2, region D:127-235 [Jmol] [rasmolscript] [script source]     - Domain d1sebd1, region D:2-121 [Jmol] [rasmolscript] [script source]     - Domain d1sebe2, region E:1-81 [Jmol] [rasmolscript] [script source]     - Domain d1sebe1, region E:82-181 [Jmol] [rasmolscript] [script source]     - Domain d1sebf2, region F:1-92 [Jmol] [rasmolscript] [script source]     - Domain d1sebf1, region F:93-192 [Jmol] [rasmolscript] [script source]     - Domain d1sebh2, region H:127-235 [Jmol] [rasmolscript] [script source]     - Domain d1sebh1, region H:2-121 [Jmol] [rasmolscript] [script source] Fold representative 1seb from FSSP and Dali (Families of Structurally Similar Proteins) 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: [1seb_A] [1seb_B] [1seb_C] [1seb_D] [1seb_E] [1seb_F] [1seb_G] [1seb_H] SWISS-PROT database: [P04229] [P01903] [P01552] Domain organization of [2B11_HUMAN] [DRA_HUMAN] [ETXB_STAAU] by SWISSPFAM Domains found in 1SEB: [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART Alignments of the sequence of 1SEB with the sequences similar proteins can be viewed for 1SEB's classification [2B11_HUMAN] [DRA_HUMAN] [ETXB_STAAU] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [2B11_HUMAN] [DRA_HUMAN] [ETXB_STAAU] at ProtoMap. Click on the Cluster number.

Other resources with information on 1SEB

Community annotation for 1SEB at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Domain movements in 1SEB from the Database of Macromolecular Movements. Images from IMB Jena Image Library of Biological Macromolecules.

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