1MQ8 Immune System date Sep 15, 2002
title Crystal Structure Of Alphal I Domain In Complex With Icam-1
authors M.Shimaoka, T.Xiao, J.H.Liu, Y.Yang, Y.Dong, C.D.Jun, A.Mccormac R.Zhang, A.Joachimiak, J.Takagi, J.H.Wang, T.A.Springer
compound source
Molecule: Intercellular Adhesion Molecule-1
Chain: A, C
Fragment: Domains 1 And 2
Synonym: Icam-1; Cd54 Antigen; Major Group Rhinovirus Recep
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Icam-1
Expression_system: Schneider S2 Insect Cells
Expression_system_strain: Schneider S2 Insect Cells
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmtbipv5-His

Molecule: Integrin Alpha-L
Chain: B, D
Fragment: Integrin Alphal I Domain
Synonym: Leukocyte Adhesion Glycoprotein Lfa-1 Alpha Chain Function Associated Molecule 1, Alpha Chain; Cd11a;
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Lfa-1 (Alphalbeta2)
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11
symmetry Space Group: P 1
R_factor 0.264 R_Free 0.313
crystal
cell
length a length b length c angle alpha angle beta angle gamma
46.560 62.868 81.517 95.39 106.67 90.00
method X-Ray Diffractionresolution 3.30 Å
ligand MG, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C


Primary referenceStructures of the alpha L I domain and its complex with ICAM-1 reveal a shape-shifting pathway for integrin regulation., Shimaoka M, Xiao T, Liu JH, Yang Y, Dong Y, Jun CD, McCormack A, Zhang R, Joachimiak A, Takagi J, Wang JH, Springer TA, Cell 2003 Jan 10;112(1):99-111. PMID:12526797
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (115 Kb) [Save to disk]
  • Biological Unit Coordinates (1mq8.pdb1.gz) 55 Kb
  • Biological Unit Coordinates (1mq8.pdb2.gz) 56 Kb
  • LPC: Ligand-Protein Contacts for 1MQ8
  • CSU: Contacts of Structural Units for 1MQ8
  • Likely Quarternary Molecular Structure file(s) for 1MQ8
  • Structure Factors (122 Kb)
  • Retrieve 1MQ8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1MQ8 from S2C, [Save to disk]
  • Re-refined 1mq8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1MQ8 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 1MQ8
  • 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 1MQ8, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1mq8a2, region A:1-82 [Jmol] [rasmolscript] [script source]
        - Domain d1mq8a1, region A:83-184 [Jmol] [rasmolscript] [script source]
        - Domain d1mq8b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1mq8c2, region C:1-82 [Jmol] [rasmolscript] [script source]
        - Domain d1mq8c1, region C:83-184 [Jmol] [rasmolscript] [script source]
        - Domain d1mq8d_, region D [Jmol] [rasmolscript] [script source]
  • Fold representative 1mq8 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: [1mq8] [1mq8_B] [1mq8_C] [1mq8_D] [1mq8_A]
  • SWISS-PROT database: [P05362] [P20701]
  • Domain organization of [ICAM1_HUMAN] [ITAL_HUMAN] by SWISSPFAM
  • Domains found in 1MQ8: [IG_like] [VWA ] by SMART
  • Other resources with information on 1MQ8
  • Community annotation for 1MQ8 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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