3KUY	Structural Protein Dna	date	Nov 28, 2009
title	Dna Stretching In The Nucleosome Facilitates Alkylation By An Intercalating Antitumor Agent
authors	B.Wu, 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 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Histone H4 Chain: B, F Engineered: Yes		Organism_scientific: Xenopus Laevis Organism_common: African Clawed Frog Organism_taxid: 8355 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Histone H2a Chain: C, G Engineered: Yes		Organism_scientific: Xenopus Laevis Organism_common: African Clawed Frog Organism_taxid: 8355 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Histone H2b Chain: D, H Engineered: Yes		Organism_scientific: Xenopus Laevis Organism_common: African Clawed Frog Organism_taxid: 8355 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Dna (145-Mer) Chain: I Engineered: Yes		Synthetic: Yes
Molecule: Dna (145-Mer) Chain: J Engineered: Yes		Synthetic: Yes
symmetry	Space Group: P 21 21 21	R_factor 0.238 R_Free 0.286
crystal cell	length a length b length c angle alpha angle beta angle gamma 106.161 109.588 182.413 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.90 Å
ligand	ATV, MN	enzyme
Gene Ontology	Chain Function Process Component A, E C, G F, B H, D
Primary reference	DNA stretching in the nucleosome facilitates alkylation by an intercalating antitumour agent., Davey GE, Wu B, Dong Y, Surana U, Davey CA, Nucleic Acids Res. 2009 Dec 21. PMID:20026584

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (245 Kb) [Save to disk] Biological Unit Coordinates (3kuy.pdb1.gz) 238 Kb LPC: Ligand-Protein Contacts for 3KUY CSU: Contacts of Structural Units for 3KUY Structure Factors (726 Kb) Retrieve 3KUY in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3KUY from S2C, [Save to disk] Re-refined 3kuy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3KUY 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 3KUY

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 3D motif for 3KUY, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3kuy_G] [3kuy_H] [3kuy] [3kuy_I] [3kuy_C] [3kuy_E] [3kuy_J] [3kuy_A] [3kuy_F] [3kuy_B] [3kuy_D] SWISS-PROT database: [P84233] [P62799] Domain organization of [H32_XENLA] [H4_XENLA] by SWISSPFAM Domains found in 3KUY: [H2A] [H2B] [H3] [H4 ] by SMART

Other resources with information on 3KUY

Community annotation for 3KUY at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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Images from IMB Jena Image Library of Biological Macromolecules.

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