3GFC Transcription date Feb 26, 2009
title Crystal Structure Of Histone-Binding Protein Rbbp4
authors M.F.Amaya, A.Dong, Z.Li, H.He, S.Ni, A.M.Edwards, C.H.Arrowsmith, J C.Bountra, A.Bochkarev, J.Min, H.Ouyang, Structural Genomics Co (Sgc)
compound source
Molecule: Histone-Binding Protein Rbbp4
Chain: A
Synonym: Retinoblastoma-Binding Protein 4, Rbbp-4, Retinobl Binding Protein P48, Chromatin Assembly Factor 1 Subunit C, Subunit C, Chromatin Assembly Factor I P48 Subunit, Caf-I 4 Subunit, Caf-I P48, Nucleosome-Remodeling Factor Subunit Rb
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rbbp4, Rbap48
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
symmetry Space Group: P 21 21 21
R_factor 0.214 R_Free 0.261
length a length b length c angle alpha angle beta angle gamma
49.645 87.214 88.203 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å

Primary referenceStructure and function of WD40 domain proteins., Xu C, Min J, Protein Cell. 2011 Mar;2(3):202-14. Epub 2011 Apr 6. PMID:21468892
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (59 Kb) [Save to disk]
  • Biological Unit Coordinates (3gfc.pdb1.gz) 54 Kb
  • CSU: Contacts of Structural Units for 3GFC
  • Likely Quarternary Molecular Structure file(s) for 3GFC
  • Structure Factors (127 Kb)
  • Retrieve 3GFC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3GFC from S2C, [Save to disk]
  • Re-refined 3gfc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3GFC 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 3GFC
  • 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 3GFC, from MSDmotif at EBI
  • Fold representative 3gfc from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3gfc_A] [3gfc]
  • SWISS-PROT database: [Q09028]
  • Domain organization of [RBBP4_HUMAN] by SWISSPFAM
  • Domain found in 3GFC: [WD40 ] by SMART
  • Other resources with information on 3GFC
  • Community annotation for 3GFC 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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