3MVD Signaling Protein Structural Protein Dna date May 04, 2010
title Crystal Structure Of The Chromatin Factor Rcc1 In Complex Wi Nucleosome Core Particle
authors R.D.Makde, J.R.England, H.P.Yennawar, S.Tan
compound source
Molecule: Histone H3.2
Chain: A, E
Engineered: Yes
Organism_scientific: Xenopus Laevis
Organism_common: Clawed Frog,Common Platanna,Platanna
Organism_taxid: 8355
Gene: Histone H3
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 (De3) Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Histone H4
Chain: B, F
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: Clawed Frog,Common Platanna,Platanna
Organism_taxid: 8355
Gene: Histone H4
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 (De3) Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Histone H2a
Chain: C, G
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: Clawed Frog,Common Platanna,Platanna
Organism_taxid: 8355
Gene: Loc494591
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 (De3) Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Histone H2b 1.1
Chain: D, H
Synonym: H2b1.1
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: Clawed Frog,Common Platanna,Platanna
Organism_taxid: 8355
Gene: Histone H2b
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 (De3) Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Dna (146-Mer)
Chain: I
Fragment: 147 Bp Widom 601 Dna Fragment (+ Strand)
Engineered: Yes

Synthetic: Yes

Molecule: Dna (146-Mer)
Chain: J
Fragment: 147 Bp Widom 601 Dna Fragment (- Strand)
Engineered: Yes

Synthetic: Yes

Molecule: Regulator Of Chromosome Condensation
Chain: K, L
Fragment: N-Terminal Region (Residues 2-422)
Synonym: Chromatin-Binding Protein Bj1
Engineered: Yes

Organism_scientific: Drosophila Melanogaster
Organism_common: Fruit Fly
Organism_taxid: 7227
Gene: Bj1, Cg10480, Rcc1 (Bj1)
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 (De3) Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pst50tr
symmetry Space Group: P 1 21 1
R_factor 0.175 R_Free 0.215
crystal
cell
length a length b length c angle alpha angle beta angle gamma
102.681 183.036 107.030 90.00 101.52 90.00
method X-Ray Diffractionresolution 2.90 Å
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


Primary referenceStructure of RCC1 chromatin factor bound to the nucleosome core particle., Makde RD, England JR, Yennawar HP, Tan S, Nature. 2010 Sep 30;467(7315):562-6. Epub 2010 Aug 25. PMID:20739938
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (761 Kb) [Save to disk]
  • Biological Unit Coordinates (3mvd.pdb1.gz) 754 Kb
  • CSU: Contacts of Structural Units for 3MVD
  • Structure Factors (1055 Kb)
  • Retrieve 3MVD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MVD from S2C, [Save to disk]
  • Re-refined 3mvd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MVD 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 3MVD
  • 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 3MVD, from MSDmotif at EBI
  • Fold representative 3mvd from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mvd_J] [3mvd_B] [3mvd_G] [3mvd_E] [3mvd_C] [3mvd_F] [3mvd_H] [3mvd_D] [3mvd_I] [3mvd] [3mvd_K] [3mvd_A] [3mvd_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3MVD: [H2A] [H2B] [H3] [H4 ] by SMART
  • Other resources with information on 3MVD
  • Community annotation for 3MVD at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science