1XDG Immune System date Sep 06, 2004
title X-Ray Structure Of Lfa-1 I-Domain In Complex With Lfa878 At Resolution
authors G.Weitz-Schmidt, K.Welzenbach, J.Dawson, J.Kallen
compound source
Molecule: Integrin Alpha-L
Chain: A, B
Fragment: I-Domain
Synonym: Leukocyte Adhesion Glycoprotein Lfa-1 Alpha Chain, Leukocyte Function Associated Molecule 1, Alpha Chain, Cd11 Alphalbeta2, Cd11acd18;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet17b
symmetry Space Group: P 21 21 21
R_factor 0.191 R_Free 0.213
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.900 77.400 92.300 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand AB8, MG enzyme
related structures by homologous chain: 1MQ9, 1XDD
Primary referenceImproved LFA-1 inhibition by statin derivatives: Molecular basis determined by X-ray analysis and monitoring of LFA-1 conformational changes in vitro and ex vivo., Weitz-Schmidt G, Welzenbach K, Dawson J, Kallen J, J Biol Chem 2004 Aug 10;. PMID:15304496
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (69 Kb) [Save to disk]
  • Biological Unit Coordinates (1xdg.pdb1.gz) 33 Kb
  • Biological Unit Coordinates (1xdg.pdb2.gz) 33 Kb
  • LPC: Ligand-Protein Contacts for 1XDG
  • CSU: Contacts of Structural Units for 1XDG
  • Likely Quarternary Molecular Structure file(s) for 1XDG
  • Structure Factors (217 Kb)
  • Retrieve 1XDG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1XDG from S2C, [Save to disk]
  • Re-refined 1xdg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1XDG 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 1XDG
  • 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
  • 3D motif for 1XDG, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1xdga_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1xdgb_, region B [Jmol] [rasmolscript] [script source]
  • 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: [1xdg_A] [1xdg_B] [1xdg]
  • SWISS-PROT database: [P20701]
  • Domain organization of [ITAL_HUMAN] by SWISSPFAM
  • Domain found in 1XDG: [VWA ] by SMART
  • Other resources with information on 1XDG
  • Community annotation for 1XDG 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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