4JHP Lipid Binding Protein date Mar 05, 2013
title The Crystal Structure Of The Rpgr Rcc1-Like Domain In Comple Pde6d
authors D.Waetzlich, I.Vetter, A.Wittinghofer, S.Ismail
compound source
Molecule: Retinal Rod Rhodopsin-Sensitive Cgmp 3',5'-Cyclic Phosphodiesterase Subunit Delta;
Chain: B
Synonym: Gmp-Pde Delta, Protein P17
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pde6d, Pded
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: X-Linked Retinitis Pigmentosa Gtpase Regulator
Chain: C
Fragment: Rpgr (8-368) The Rcc1-Like Domain
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rpgr, Rp3, Xlrp3
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.200 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
133.830 58.780 92.110 90.00 123.32 90.00
method X-Ray Diffractionresolution 1.90 Å
Gene
Ontology
ChainFunctionProcessComponent
B


Primary referenceThe interplay between RPGR, PDEdelta and Arl2/3 regulate the ciliary targeting of farnesylated cargo., Watzlich D, Vetter I, Gotthardt K, Miertzschke M, Chen YX, Wittinghofer A, Ismail S, EMBO Rep. 2013 Apr 5. doi: 10.1038/embor.2013.37. PMID:23559067
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (92 Kb) [Save to disk]
  • Biological Unit Coordinates (4jhp.pdb1.gz) 87 Kb
  • CSU: Contacts of Structural Units for 4JHP
  • Structure Factors (366 Kb)
  • Retrieve 4JHP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4JHP from S2C, [Save to disk]
  • Re-refined 4jhp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4JHP 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 4JHP
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4JHP, from MSDmotif at EBI
  • Fold representative 4jhp from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4jhp] [4jhp_B] [4jhp_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4JHP
  • Community annotation for 4JHP at PDBWiki (http://pdbwiki.org)

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