5Y1U Gene Regulation date Jul 21, 2017
title Crystal Structure Of Rbbp4 Bound To Aebp2 Rrk Motif
authors A.Sun, F.Li, J.Wu, Y.Shi
compound source
Molecule: Histone-Binding Protein Rbbp4
Chain: A, B
Synonym: Chromatin Assembly Factor 1 Subunit C,Caf-1 Subuni Chromatin Assembly Factor I P48 Subunit,Caf-I P48,Nucleosom Remodeling Factor Subunit Rbap48,Retinoblastoma-Binding Pro Rbbp-4,Retinoblastoma-Binding Protein P48;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rbbp4, Rbap48
Expression_system: Trichoplusia Ni
Expression_system_taxid: 7111
Expression_system_plasmid: Pfastbactm Ht-B

Molecule: Zinc Finger Protein Aebp2
Chain: C, D
Fragment: Unp Residues 379-390
Synonym: Adipocyte Enhancer-Binding Protein 2,Ae-Binding Pr
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1 21 1
R_factor 0.169 R_Free 0.219
length a length b length c angle alpha angle beta angle gamma
76.761 59.452 102.438 90.00 94.33 90.00
method X-Ray Diffractionresolution 2.14 Å
ligand SO4 enzyme
A, B

Primary referenceStructural and biochemical insights into human zinc finger protein AEBP2 reveals interactions with RBBP4., Sun A, Li F, Liu Z, Jiang Y, Zhang J, Wu J, Shi Y, Protein Cell. 2017 Nov 13. pii: 10.1007/s13238-017-0483-6. doi:, 10.1007/s13238-017-0483-6. PMID:29134516
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (279 Kb) [Save to disk]
  • Biological Unit Coordinates (5y1u.pdb1.gz) 138 Kb
  • Biological Unit Coordinates (5y1u.pdb2.gz) 138 Kb
  • LPC: Ligand-Protein Contacts for 5Y1U
  • CSU: Contacts of Structural Units for 5Y1U
  • Structure Factors (1078 Kb)
  • Retrieve 5Y1U in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5Y1U from S2C, [Save to disk]
  • View 5Y1U 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 5Y1U
  • 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 5y1u from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5y1u_C] [5y1u_A] [5y1u_B] [5y1u_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5Y1U
  • Community annotation for 5Y1U at PDBWiki (http://pdbwiki.org)

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