1HDM Immune System date Sep 09, 1998
title Histocompatibility Antigen Hla-Dm
authors D.C.Wiley, L.Mosyak
compound source
Molecule: Protein (Class II Histocompatibility Antigen, M Alpha Chain);
Chain: A
Fragment: Extracellular Domains
Synonym: Ring6, Hla-Dma
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell: B-Lymphocyte
Expression_system: Drosophila Hydei
Expression_system_taxid: 7224
Other_details: Drosophila S2 Insect Cells

Molecule: Protein (Class II Histocompatibility Antigen, M Beta Chain);
Chain: B
Fragment: Extracellular Domains
Synonym: Ring7, Hla-Dmb
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell: B-Lymphocyte
Expression_system: Drosophila Hydei
Expression_system_taxid: 7224
Other_details: Drosophila S2 Insect Cells
symmetry Space Group: C 2 2 21
R_factor 0.197 R_Free 0.257
crystal
cell
length a length b length c angle alpha angle beta angle gamma
95.390 109.930 105.120 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceThe structure of HLA-DM, the peptide exchange catalyst that loads antigen onto class II MHC molecules during antigen presentation., Mosyak L, Zaller DM, Wiley DC, Immunity 1998 Sep;9(3):377-83. PMID:9768757
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (63 Kb) [Save to disk]
  • Biological Unit Coordinates (1hdm.pdb1.gz) 60 Kb
  • Biological Unit Coordinates (1hdm.pdb2.gz) 118 Kb
  • Biological Unit Coordinates (1hdm.pdb3.gz) 117 Kb
  • CSU: Contacts of Structural Units for 1HDM
  • Likely Quarternary Molecular Structure file(s) for 1HDM
  • Retrieve 1HDM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1HDM from S2C, [Save to disk]
  • View 1HDM 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 1HDM
  • 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 1HDM, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1hdma2, region A:13-93 [Jmol] [rasmolscript] [script source]
        - Domain d1hdma1, region A:94-196 [Jmol] [rasmolscript] [script source]
        - Domain d1hdmb2, region B:3-87 [Jmol] [rasmolscript] [script source]
        - Domain d1hdmb1, region B:88-185 [Jmol] [rasmolscript] [script source]
  • Fold representative 1hdm 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: [1hdm_B] [1hdm] [1hdm_A]
  • SWISS-PROT database: [P28067] [P28068]
  • Domain organization of [DMA_HUMAN] [DMB_HUMAN] by SWISSPFAM
  • Domains found in 1HDM: [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART
  • Other resources with information on 1HDM
  • Community annotation for 1HDM at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science