1KGD Protein Binding date Nov 26, 2001
title Crystal Structure Of The Guanylate Kinase-Like Domain Of Human Cask
authors Y.Li, O.Spangenberg, I.Paarmann, M.Konrad, A.Lavie
compound source
Molecule: Peripheral Plasma Membrane Cask
Chain: A
Fragment: Guanylate Kinase Like Domain
Synonym: Cask
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 32 2 1
R_factor 0.186 R_Free 0.212
length a length b length c angle alpha angle beta angle gamma
70.341 70.341 74.861 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.31 Å
ligand FMT enzyme
note 1KGD is a representative structure
Primary referenceStructural basis for nucleotide-dependent regulation of membrane-associated guanylate kinase-like domains., Li Y, Spangenberg O, Paarmann I, Konrad M, Lavie A, J Biol Chem 2002 Feb 8;277(6):4159-65. PMID:11729206
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (1kgd.pdb1.gz) 69 Kb
  • LPC: Ligand-Protein Contacts for 1KGD
  • CSU: Contacts of Structural Units for 1KGD
  • Likely Quarternary Molecular Structure file(s) for 1KGD
  • Structure Factors (313 Kb)
  • Retrieve 1KGD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1KGD from S2C, [Save to disk]
  • Re-refined 1kgd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1KGD 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 1KGD
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 1KGD from the CEP Server.
  • 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 1KGD, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1kgda_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1kgd 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: [1kgd] [1kgd_A]
  • SWISS-PROT database: [O14936]
  • Domain organization of [CSKP_HUMAN] by SWISSPFAM
  • Domain found in 1KGD: [GuKc ] by SMART
  • Other resources with information on 1KGD
  • Community annotation for 1KGD 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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