6DRF Signaling Protein date Jun 11, 2018
title Structure Of Human Retinal Degeneration 3(Rd3) Protein
authors Q.Yu, S.Lim, I.Peshenko, D.Cudia, A.M.Dizhoor, J.B.Ames
compound source
Molecule: Protein Rd3
Chain: A
Fragment: Residues 19-153
Synonym: Retinal Degeneration Protein 3
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rd3, C1orf36
Expression_system: Escherichia Coli
Expression_system_taxid: 562
methodSolution NMR
Primary referenceRetinal degeneration 3 (RD3) protein, a retinal guanylyl cyclase regulator, forms a monomeric and elongated four-helix bundle., Peshenko IV, Yu Q, Lim S, Cudia D, Dizhoor AM, Ames JB, J Biol Chem. 2019 Feb 15;294(7):2318-2328. doi: 10.1074/jbc.RA118.006106. Epub, 2018 Dec 17. PMID:30559291
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (388 Kb) [Save to disk]
  • Biological Unit Coordinates (6drf.pdb1.gz) 39 Kb
  • CSU: Contacts of Structural Units for 6DRF
  • Original NMR restraints for 6DRF from PDB
  • Retrieve 6DRF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6DRF from S2C, [Save to disk]
  • View 6DRF 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 6DRF
  • 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
  • Fold representative 6drf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6drf_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6DRF
  • Community annotation for 6DRF at PDBWiki (http://pdbwiki.org)

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