3MGQ Structural Protein Dna date Apr 07, 2010
title Binding Of Nickel Ions To The Nucleosome Core Particle
authors K.Mohideen, R.Muhammad, C.A.Davey
compound source
Molecule: Histone H3.2
Chain: A, E
Engineered: Yes
Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Gene: Histone 3 Or H3
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3d

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

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Gene: Histone 4 Or H4
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3a

Molecule: Histone H2a
Chain: C, G
Fragment: Unp Residues 2-120
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Gene: Histone 2a Or H2a, Loc494591
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3a

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

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Gene: Histone 2b Or H2b
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3a

Molecule: Dna (147-Mer)
Chain: I
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Palindromic Dna Expressed In Puc18 Using E.Coli Hb101 Cells.;

Molecule: Dna (147-Mer)
Chain: J
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Palindromic Dna Expressed In Puc18 Using E.Coli Hb101 Cells.
symmetry Space Group: P 21 21 21
R_factor 0.232 R_Free 0.276
crystal
cell
length a length b length c angle alpha angle beta angle gamma
106.129 109.643 183.109 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.65 Å
ligand CL, NI enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


Primary referencePerturbations in nucleosome structure from heavy metal association., Mohideen K, Muhammad R, Davey CA, Nucleic Acids Res. 2010 May 21. PMID:20494975
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (252 Kb) [Save to disk]
  • Biological Unit Coordinates (3mgq.pdb1.gz) 244 Kb
  • LPC: Ligand-Protein Contacts for 3MGQ
  • CSU: Contacts of Structural Units for 3MGQ
  • Structure Factors (3209 Kb)
  • Retrieve 3MGQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MGQ from S2C, [Save to disk]
  • Re-refined 3mgq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MGQ 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 3MGQ
  • 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 3MGQ, from MSDmotif at EBI
  • Fold representative 3mgq from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mgq] [3mgq_I] [3mgq_B] [3mgq_D] [3mgq_H] [3mgq_J] [3mgq_A] [3mgq_F] [3mgq_G] [3mgq_C] [3mgq_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3MGQ: [H2A] [H2B] [H3] [H4 ] by SMART
  • Other resources with information on 3MGQ
  • Community annotation for 3MGQ 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