1KAT Cell Cycle, Hormone Growth Factor date Nov 02, 2001
title Solution Structure Of A Phage-Derived Peptide Antagonist In With Vascular Endothelial Growth Factor
authors B.Pan, B.Li, S.J.Russell, J.Y.K.Tom, A.G.Cochran, W.J.Fairbrother
compound source
Molecule: Vascular Endothelial Growth Factor
Chain: V, W
Fragment: Receptor Binding Domain
Synonym: Vegf; Vascular Permeability Factor; Vpf
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Vegf Or Vegfa
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Phage-Derived Peptide Antagonist
Chain: X, Y
Synonym: V107
Engineered: Yes
Synthetic: Yes
methodSolution NMR
related structures by homologous chain: 1TZI
Gene
Ontology
ChainFunctionProcessComponent
W, V


Primary referenceSolution structure of a phage-derived peptide antagonist in complex with vascular endothelial growth factor., Pan B, Li B, Russell SJ, Tom JY, Cochran AG, Fairbrother WJ, J Mol Biol 2002 Feb 22;316(3):769-87. PMID:11866530
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1641 Kb) [Save to disk]
  • Biological Unit Coordinates (1kat.pdb1.gz) 68 Kb
  • CSU: Contacts of Structural Units for 1KAT
  • Experimental data, such as chemical shifts, at BioMagResBank (BMRB)
  • NMR Restraints Grid from BioMagResBank (BMRB)
  • Retrieve 1KAT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1KAT from S2C, [Save to disk]
    • View 1KAT 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 1KAT
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1KAT, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1katv_, region V [Jmol] [rasmolscript] [script source]
        - Domain d1katw_, region W [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: [1kat_X] [1kat_V] [1kat] [1kat_W] [1kat_Y]
  • SWISS-PROT database: [P15692]
  • Domain organization of [VEGFA_HUMAN] by SWISSPFAM
  • Domain found in 1KAT: [PDGF ] by SMART
    • Other resources with information on 1KAT
  • Community annotation for 1KAT at PDBWiki (http://pdbwiki.org)
  • NMR Ensemble (OLDERADO: core, domain and representative structure database)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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