1LEK Immune System date Apr 09, 2002
title Crystal Structure Of H-2kbm3 Bound To Dev8
authors J.G.Luz, M.Huang, K.C.Garcia, M.G.Rudolph, V.Apostolopoulos, L.Te I.A.Wilson
compound source
Molecule: H-2 Class I Histocompatibility Antigen, K-B Alpha
Chain: A
Fragment: Extracellular Domain, Sequence Database Residues Numbered 1-274;
Synonym: Mhc Class I H-2kb Heavy Chain
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pet22b(+)

Molecule: Beta-2-Microglobulin
Chain: B
Fragment: Sequence Database Residues 21-119, Numbered 1-99
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pet22b(+)

Molecule: Dev8
Chain: P
Engineered: Yes

Synthetic: Yes
Other_details: The Peptide Is Chemically Synthesized.
symmetry Space Group: P 21 21 2
R_factor 0.206 R_Free 0.258
crystal
cell
length a length b length c angle alpha angle beta angle gamma
135.894 87.123 45.231 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.15 Å
ligand CSO, FUC, NAG, PO4 enzyme
related structures by homologous chain: 1DUY, 1JHT
Gene
Ontology
ChainFunctionProcessComponent
B


Primary referenceStructural comparison of allogeneic and syngeneic T cell receptor-peptide-major histocompatibility complex complexes: a buried alloreactive mutation subtly alters peptide presentation substantially increasing V(beta) Interactions., Luz JG, Huang M, Garcia KC, Rudolph MG, Apostolopoulos V, Teyton L, Wilson IA, J Exp Med 2002 May 6;195(9):1175-86. PMID:11994422
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (1lek.pdb1.gz) 68 Kb
  • LPC: Ligand-Protein Contacts for 1LEK
  • CSU: Contacts of Structural Units for 1LEK
  • Likely Quarternary Molecular Structure file(s) for 1LEK
  • Retrieve 1LEK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1LEK from S2C, [Save to disk]
  • View 1LEK 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 1LEK
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1LEK, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1leka2, region A:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1leka1, region A:182-274 [Jmol] [rasmolscript] [script source]
        - Domain d1lekb_, region B [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: [1lek_P] [1lek_B] [1lek_A] [1lek]
  • SWISS-PROT database: [P01887] [P01901]
  • Domain organization of [B2MG_MOUSE] [HA1B_MOUSE] by SWISSPFAM
  • Domain found in 1LEK: [IGc1 ] by SMART
  • Other resources with information on 1LEK
  • Community annotation for 1LEK 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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