OCA Atlas for 1A9B
1A9B Complex (Mhc Class I Peptide) date Apr 03, 1998
title Decamer-Like Conformation Of A Nano-Peptide Bound To Hla-B 3501 Due To Nonstandard Positioning Of The C-Terminus
authors R.Menssen, P.Orth, A.Ziegler, W.Saenger
compound source
Molecule: Hla B3501
Chain: A, B, D, E
Engineered: Synthetic Gene
Biological_unit: Monomer
 Organism_scientific: Homo Sapiens
Organism_common: Human
Expression_system: Escherichia Coli

Molecule: Peptide Lpplditpy
Chain: C, F
Engineered: Yes
Other_details: Peptide From Ebna3c-Protein From Ebv
Synthetic: Yes
Other_details: Peptide From Ebna3c-Protein From Ebv
symmetry Space Group: P 21 21 21
R_factor 0.251
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.740 116.390 169.340 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.2 Å
similarity Contains 1 immunoglobulin-like domain.[MHC_I]
subunit Dimer of alpha chain and a beta chain (beta-2- microglobulin).
subcellular loc. Secreted.
genes B2M, HLA-B, HLAB (H. sapiens)
function Involved in the presentation of foreign antigens to the immune system. Beta-2-microglobulin is the beta-chain of major histocompatibility complex class i molecules.
disease Hemodialysis-related amyloidosis
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (140 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 1A9B
  • Likely Quarternary Molecular Structure file(s) for 1A9B
  • Structure Factors (r1a9bsf.ent.Z) 116 Kb
  • Retrieve 1A9B in mmCIF format [Save to disk]
    • View 1A9B in 3D
  • Protein Explorer, Easier to use and more powerful than RasMol. (Win and Mac only)
  • FirstGlance in Chemscape Chime (Install Chime freeware) This is good for easiest viewing of basic structure.
  • RasMol (Install RasMol freeware) Here's help on how to use RasMol.
    • Visual 3D analysis of 1A9B
  • STING, shows the sequence and maps the locations of sequence residues or residue ranges onto the 3D structure.
  • Noncovalent Bond Finder displays the closest contacts to ligand or interface, reports distances, walks over water bridges.
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1a9ba2, region A:1-181 [rasmolscript] [script source]
        - Domain d1a9ba1, region A:182-277 [rasmolscript] [script source]
        - Domain d1a9bb1, region B: [rasmolscript] [script source]
        - Domain d1a9bd2, region D:1-181 [rasmolscript] [script source]
        - Domain d1a9bd1, region D:182-277 [rasmolscript] [script source]
        - Domain d1a9be1, region E: [rasmolscript] [script source]
  • Fold representative 1a9b from FSSP and Dali (Families of Structurally Similar Proteins)
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1a9b_A] [1a9b_B] [1a9b_C] [1a9b_D] [1a9b_E] [1a9b_F]
  • SWISS-PROT database: [1B21_HUMAN] [B2MG_HUMAN]
  • Domain organization of [1B21_HUMAN] [B2MG_HUMAN] by SWISSPFAM
  • Domain found in 1A9B: [IGc1 ] by SMART
  • Conserved protein region description, domain view and alignment from family MHC_I (PF00129) of Pfam.
  • Alignments of the sequence of 1A9B with the sequences similar proteins can be viewed for classification [1B21_HUMAN] [B2MG_HUMAN] 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 [1B21_HUMAN] [B2MG_HUMAN] at ProtoMap. Click on the Cluster number.
    • Other resources with information on 1A9B
  • InterPro: IPR003006 , IPR001039 , IPR003597
  • PDBREPORT (protein verification by WHAT_CHECK procedures)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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