1H4A Eye Lens Protein date Feb 25, 2003
title Human Gamma-D Crystallin R58h Mutant Structure At 1.15 A Resolution
authors A.K.Basak, C.Slingsby
compound source
Molecule: Gamma Crystallin D
Chain: X
Synonym: Gamma Crystallin 4
Engineered: Yes
Mutation: 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 0.155 R_Free 0.182
crystal
cell
length a length b length c angle alpha angle beta angle gamma
33.467 53.234 89.809 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.15 Å
note 1H4A is a representative structure
related structures by homologous chain: 1AMM
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 (1h4a.pdb1.gz) 70 Kb
  • CSU: Contacts of Structural Units for 1H4A
  • Likely Quarternary Molecular Structure file(s) for 1H4A
  • Structure Factors (859 Kb)
  • Retrieve 1H4A in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1H4A from S2C, [Save to disk]
  • Re-refined 1h4a structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1H4A 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 1H4A
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 1H4A 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 1H4A, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1h4ax1, region X:1-85 [Jmol] [rasmolscript] [script source]
        - Domain d1h4ax2, region X:87-174 [Jmol] [rasmolscript] [script source]
  • Fold representative 1h4a 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: [1h4a_X] [1h4a]
  • SWISS-PROT database: [P07320]
  • Domain organization of [CRGD_HUMAN] by SWISSPFAM
  • Domain found in 1H4A: [XTALbg ] by SMART
  • Alignments of the sequence of 1H4A with the sequences similar proteins can be viewed for 1H4A's classification [CRGD_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [CRGD_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1H4A
  • Community annotation for 1H4A 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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