OCA Atlas for 1IAO
1IAO Mhc Ii date Mar 13, 1998
title Class II Mhc I-Ad In Complex With Ovalbumin Peptide 323-339
authors C.A.Scott, P.A.Peterson, L.Teyton, I.A.Wilson
compound source
Molecule: Mhc Class II I-Ad
Chain: A, B
Engineered: Yes
Other_details: Both The A And B Chains Have An 8-Residue (Ssadlvpr) Peptide Bound To The C-Terminus. The B Chain Also Has A 24-Residue Peptide Consisting Of A 2-Residue (Rg) Signal Sequence, Residues 323 - 339 Of Hen Egg Ovalbumin And A 6-Residue (Gsgsgs) Linker, Covalently Bonded To The N-Terminus.
 Organism_scientific: Mus Musculus
Organism_common: Mouse
Strain: Balbc
Expression_system: Drosophila Melanogaster
Expression_system_cell_line: S2
Other_details: Heterologous Expression
symmetry Space Group: P 41 21 2
R_factor 0.255
crystal
cell
length a length b length c angle alpha angle beta angle gamma
101.300 101.300 92.600 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.6 Å
ligand NAGenzyme
related structures by homologous chain: 1ES0
similarity Belongs to the MHC_II_beta family.
gene H2-AB1 (M. musculus)
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk]
  • LPC: Ligand-Protein Contacts for 1IAO
  • CSU: Contacts of Structural Units for 1IAO
  • Likely Quarternary Molecular Structure file(s) for 1IAO
  • Retrieve 1IAO in mmCIF format [Save to disk]
    • View 1IAO 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 1IAO
  • 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 d1iaoa2, region A:1-82 [rasmolscript] [script source]
        - Domain d1iaoa1, region A:83-178 [rasmolscript] [script source]
        - Domain d1iaob2, region B:6-93 [rasmolscript] [script source]
        - Domain d1iaob1, region B:94-188 [rasmolscript] [script source]
  • Fold representative 1iao from FSSP and Dali (Families of Structurally Similar Proteins)
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1iao_A] [1iao_B]
  • SWISS-PROT database: [HB2D_MOUSE]
  • Domain organization of [HB2D_MOUSE] by SWISSPFAM
  • Domain found in 1IAO: [IGc1 ] by SMART
  • Conserved protein region description, domain view and alignment from family MHC_II_beta (PF00969) of Pfam.
  • Alignments of the sequence of 1IAO with the sequences similar proteins can be viewed for classification [HB2D_MOUSE] 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 [HB2D_MOUSE] at ProtoMap. Click on the Cluster number.
    • Other resources with information on 1IAO
  • InterPro: IPR003006 , IPR003597 , IPR000353
  • 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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