1F2L Cytokine date May 26, 2000
title Crystal Structure Of Chemokine Domain Of Fractalkine
authors D.M.Hoover, L.S.Mizoue, T.M.Handel, J.Lubkowski
compound source
Molecule: Fractalkine
Chain: A, B, C, D
Fragment: Chemokine Domain
Synonym: Neurotactin, Cx3c Membrane-Anchored Chemokine, Small Inducible Cytokine D1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Paed4
symmetry Space Group: P 61 2 2
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
110.473 110.473 123.994 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.00 Å
note 1F2L is a representative structure
related structures by homologous chain: 1B2T
Primary referenceThe crystal structure of the chemokine domain of fractalkine shows a novel quaternary arrangement., Hoover DM, Mizoue LS, Handel TM, Lubkowski J, J Biol Chem 2000 Jul 28;275(30):23187-93. PMID:10770945
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (53 Kb) [Save to disk]
  • Biological Unit Coordinates (1f2l.pdb1.gz) 49 Kb
  • CSU: Contacts of Structural Units for 1F2L
  • Likely Quarternary Molecular Structure file(s) for 1F2L
  • Structure Factors (233 Kb)
  • Retrieve 1F2L in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1F2L from S2C, [Save to disk]
  • Re-refined 1f2l structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1F2L 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 1F2L
  • 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 1F2L, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1f2la_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1f2lb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1f2lc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1f2ld_, region D [Jmol] [rasmolscript] [script source]
  • Fold representative 1f2l 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: [1f2l_D] [1f2l] [1f2l_A] [1f2l_B] [1f2l_C]
  • SWISS-PROT database: [P78423]
  • Domain organization of [X3CL1_HUMAN] by SWISSPFAM
  • Domain found in 1F2L: [SCY ] by SMART
  • Other resources with information on 1F2L
  • Community annotation for 1F2L 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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