1PDR Signal Transduction date Jul 26, 1996
title Crystal Structure Of The Third Pdz Domain From The Human Hom Discs Large Protein
authors J.M.Cabral, R.Liddington
compound source
Molecule: Human Discs Large Protein
Chain: A
Fragment: Pdz3 Domain, Dhr3 Domain
Synonym: Hdlg, Dhr3 Domain
Engineered: Yes
Other_details: The Third Pdz Domain Of The Human Homologue Large Protein
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_plasmid: Pgex-2t
symmetry Space Group: P 63 2 2
R_factor 0.220 R_Free 0.271
crystal
cell
length a length b length c angle alpha angle beta angle gamma
110.970 110.970 62.470 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.80 Å
related structures by homologous chain: 1BFE, 1UM7
Primary referenceCrystal structure of a PDZ domain., Morais Cabral JH, Petosa C, Sutcliffe MJ, Raza S, Byron O, Poy F, Marfatia SM, Chishti AH, Liddington RC, Nature 1996 Aug 15;382(6592):649-52. PMID:8757139
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (22 Kb) [Save to disk]
  • Biological Unit Coordinates (1pdr.pdb1.gz) 104 Kb
  • CSU: Contacts of Structural Units for 1PDR
  • Likely Quarternary Molecular Structure file(s) for 1PDR
  • Structure Factors (54 Kb)
  • Retrieve 1PDR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PDR from S2C, [Save to disk]
  • Re-refined 1pdr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PDR 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 1PDR
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • 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 1PDR, from MSDmotif at EBI
  • Genome occurence of 1PDR's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pdr__, region [Jmol] [rasmolscript] [script source]
  • Fold representative 1pdr 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: [1pdr] [1pdr_A]
  • SWISS-PROT database: [Q12959]
  • Belongs to the ezrin/radixin/moesin-binding phosphoprotein 50 (ebp50) family according to TCDB.
  • Domain organization of [DLG1_HUMAN] by SWISSPFAM
  • Domain found in 1PDR: [PDZ ] by SMART
  • Other resources with information on 1PDR
  • Community annotation for 1PDR 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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