1BQH Immune System date Aug 16, 1998
title Murine Cd8aa Ectodomain Fragment In Complex With H-2kbvsv8
authors J.H.Wang, E.L.Reinherz, P.S.Kern, H.C.Chang
compound source
Molecule: Protein (H-2 Class I Histocompatibility Antigen)
Chain: A, D
Fragment: Alpha Chain
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090

Molecule: Protein (Beta-2-Microglobulin )
Chain: B, E
Fragment: Beta Chain

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090

Molecule: Protein (Vsv8)
Chain: C, F
Fragment: Antigenic Peptide
Engineered: Yes

Synthetic: Yes

Molecule: Protein (Cd8a Or Lyt2 Or Lyt-2)
Chain: G, H, I, K
Fragment: Ig Ectodomain Fragment
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Mus Musculus
Expression_system_common: House Mouse
Expression_system_taxid: 10090
Expression_system_cell_line: Cho Lec
Expression_system_vector: Pee14
Expression_system_gene: Cd8a
Other_details: Gene Fused To Thrombin Cleavage Site And Leu Zipper
symmetry Space Group: P 21 21 21
R_factor 0.212 R_Free 0.296
length a length b length c angle alpha angle beta angle gamma
85.900 98.400 170.600 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand NAG, NDG enzyme
related structures by homologous chain: 1IM9, 1NEZ, 2MHA
E, B

Primary referenceStructural basis of CD8 coreceptor function revealed by crystallographic analysis of a murine CD8alphaalpha ectodomain fragment in complex with H-2Kb., Kern PS, Teng MK, Smolyar A, Liu JH, Liu J, Hussey RE, Spoerl R, Chang HC, Reinherz EL, Wang JH, Immunity 1998 Oct;9(4):519-30. PMID:9806638
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (213 Kb) [Save to disk]
  • Biological Unit Coordinates (1bqh.pdb1.gz) 106 Kb
  • Biological Unit Coordinates (1bqh.pdb2.gz) 106 Kb
  • LPC: Ligand-Protein Contacts for 1BQH
  • CSU: Contacts of Structural Units for 1BQH
  • Likely Quarternary Molecular Structure file(s) for 1BQH
  • Structure Factors (265 Kb)
  • Retrieve 1BQH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1BQH from S2C, [Save to disk]
  • Re-refined 1bqh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1BQH 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 1BQH
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1BQH, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1bqha2, region A:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1bqha1, region A:182-274 [Jmol] [rasmolscript] [script source]
        - Domain d1bqhb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1bqhd2, region D:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1bqhd1, region D:182-274 [Jmol] [rasmolscript] [script source]
        - Domain d1bqhe_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1bqhg_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1bqhh_, region H [Jmol] [rasmolscript] [script source]
        - Domain d1bqhi_, region I [Jmol] [rasmolscript] [script source]
        - Domain d1bqhk_, region K [Jmol] [rasmolscript] [script source]
  • Fold representative 1bqh 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: [1bqh_A] [1bqh_I] [1bqh_K] [1bqh_G] [1bqh_E] [1bqh_H] [1bqh_B] [1bqh_F] [1bqh_C] [1bqh_D] [1bqh]
  • SWISS-PROT database: [P01887] [P01731] [P01901]
  • Domain organization of [B2MG_MOUSE] [CD8A_MOUSE] [HA1B_MOUSE] by SWISSPFAM
  • Domains found in 1BQH: [IG] [IGc1 ] by SMART
  • Other resources with information on 1BQH
  • Community annotation for 1BQH 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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