1SDF Cytokine date Nov 15, 1997
title Solution Structure Of Stromal Cell-Derived Factor-1 (Sdf-1), Nmr, Minimized Average Structure
authors M.P.Crump, K.Rajarathnam, I.Clark-Lewis, B.D.Sykes
compound source
Molecule: Stromal Cell-Derived Factor-1
Chain: A
Synonym: Sdf
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
methodSolution NMR
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceSolution structure and basis for functional activity of stromal cell-derived factor-1; dissociation of CXCR4 activation from binding and inhibition of HIV-1., Crump MP, Gong JH, Loetscher P, Rajarathnam K, Amara A, Arenzana-Seisdedos F, Virelizier JL, Baggiolini M, Sykes BD, Clark-Lewis I, EMBO J 1997 Dec 1;16(23):6996-7007. PMID:9384579
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (23 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 1SDF
  • Original NMR restraints for 1SDF from PDB
  • Retrieve 1SDF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1SDF from S2C, [Save to disk]
  • View 1SDF 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 1SDF
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1SDF, from MSDmotif at EBI
  • Genome occurence of 1SDF's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1sdf__, region [Jmol] [rasmolscript] [script source]
  • Fold representative 1sdf 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: [1sdf_A] [1sdf]
  • SWISS-PROT database: [P48061]
  • Domain organization of [SDF1_HUMAN] by SWISSPFAM
  • Domain found in 1SDF: [SCY ] by SMART
  • Other resources with information on 1SDF
  • Community annotation for 1SDF at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1SDF from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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