1HK0 Eye Lens Protein date Mar 05, 2003
title Human Gamma-D Crystallin Structure At 1.25 A Resolution
authors A.K.Basak, C.Slingsby
compound source
Molecule: Gamma Crystallin D
Chain: X
Synonym: Gamma-D Crystallin, Gamma Crystallin 4
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Eye Lens
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_cell_line: Plyss
Expression_system_vector: Pet3a
symmetry Space Group: P 21 21 21
R_factor 0.164 R_Free 0.207
crystal
cell
length a length b length c angle alpha angle beta angle gamma
33.220 52.971 90.468 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.25 Å
related structures by homologous chain: 1AMM, 4GCR
Gene
Ontology
ChainFunctionProcessComponent
X


Primary referenceHigh-resolution X-ray crystal structures of human gammaD crystallin (1.25 A) and the R58H mutant (1.15 A) associated with aculeiform cataract., Basak A, Bateman O, Slingsby C, Pande A, Asherie N, Ogun O, Benedek GB, Pande J, J Mol Biol 2003 May 16;328(5):1137-47. PMID:12729747
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (71 Kb) [Save to disk]
  • Biological Unit Coordinates (1hk0.pdb1.gz) 70 Kb
  • CSU: Contacts of Structural Units for 1HK0
  • Likely Quarternary Molecular Structure file(s) for 1HK0
  • Structure Factors (560 Kb)
  • Retrieve 1HK0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1HK0 from S2C, [Save to disk]
  • Re-refined 1hk0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1HK0 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 1HK0
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 1HK0 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 1HK0, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1hk0x1, region X:1-85 [Jmol] [rasmolscript] [script source]
        - Domain d1hk0x2, region X:87-174 [Jmol] [rasmolscript] [script source]
  • Fold representative 1hk0 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: [1hk0] [1hk0_X]
  • SWISS-PROT database: [P07320]
  • Domain organization of [CRGD_HUMAN] by SWISSPFAM
  • Domain found in 1HK0: [XTALbg ] by SMART
  • Other resources with information on 1HK0
  • Community annotation for 1HK0 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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