1GD3 Protein Binding date Sep 08, 2000
title Refined Solution Structure Of Human Cystatin A
authors N.Shimba, E.Kariya, S.Tate, H.Kaji, M.Kainosho
compound source
Molecule: Cystatin A
Chain: A
Engineered: Yes
Mutation: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
methodSolution NMR
related structures by homologous chain: 1GD4, 1N9J
Gene
Ontology
ChainFunctionProcessComponent
A
  • endopeptidase inhibitor acti...
  • cysteine-type endopeptidase ...


    • Primary referenceStructural comparison between wild-type and P25S human cystatin A by NMR spectroscopy. Does this mutation affect the alpha-helix conformation?, Shimba N, Kariya E, Tate S, Kaji H, Kainosho M, J Struct Funct Genomics 2000;1(1):26-42. PMID:12836678
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (32 Kb) [Save to disk]
  • Biological Unit Coordinates (1gd3.pdb1.gz) 29 Kb
  • CSU: Contacts of Structural Units for 1GD3
  • Original NMR restraints for 1GD3 from PDB
  • Experimental data, such as chemical shifts, at BioMagResBank (BMRB)
  • NMR Restraints Grid from BioMagResBank (BMRB)
  • Retrieve 1GD3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1GD3 from S2C, [Save to disk]
    • View 1GD3 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 1GD3
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1GD3, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1gd3a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1m1gd3, region D:10-50,D:132-190 [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: [1gd3] [1gd3_A]
  • SWISS-PROT database: [P01040]
  • Domain organization of [CYTA_HUMAN] by SWISSPFAM
  • Domain found in 1GD3: [CY ] by SMART
    • Other resources with information on 1GD3
  • Community annotation for 1GD3 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Domain movements in 1GD3 from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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