3BKZ	Dna Repair,Oxidoreductase Dna	date	Dec 09, 2007
title	X-Ray Structure Of E Coli Alkb Crosslinked To Dsdna In The A
authors	C.Yi, C.G.Yang, C.He
compound		source
Molecule: Alpha-Ketoglutarate-Dependent Dioxygenase Alkb Chain: A Synonym: Alkylated Dna Repair Protein Alkb Ec: 1.14.11.- Engineered: Yes Mutation: Yes		Organism_scientific: Escherichia Coli K12 Organism_taxid: 83333 Strain: K-12 Gene: Alkb, Aidd Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet30
Molecule: Dna (5'- D(Dtpdapdgpdgpdtpdapdapdcpdapdtpdcpdgpdt)-3'); Chain: B Engineered: Yes		Synthetic: Yes
Molecule: Dna (5'- D(Dapdapdcpdgpdapdtpdapdtpdtpdapdcpdcpdt)-3'); Chain: C Engineered: Yes		Synthetic: Yes
symmetry	Space Group: P 1 21 1	R_factor 0.188 R_Free 0.212
crystal cell	length a length b length c angle alpha angle beta angle gamma 41.397 75.507 46.788 90.00 105.45 90.00
method	X-Ray Diffraction	resolution	1.65 Å
ligand	2YR, AKG, MN	enzyme	Oxidoreductase E.C.1.14.11 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Crystal structures of DNA/RNA repair enzymes AlkB and ABH2 bound to dsDNA., Yang CG, Yi C, Duguid EM, Sullivan CT, Jian X, Rice PA, He C, Nature. 2008 Apr 24;452(7190):961-5. PMID:18432238

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (59 Kb) [Save to disk] Biological Unit Coordinates (3bkz.pdb1.gz) 53 Kb LPC: Ligand-Protein Contacts for 3BKZ CSU: Contacts of Structural Units for 3BKZ Likely Quarternary Molecular Structure file(s) for 3BKZ Structure Factors (697 Kb) Retrieve 3BKZ in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3BKZ from S2C, [Save to disk] Re-refined 3bkz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3BKZ 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 3BKZ

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 3BKZ, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3bkz] [3bkz_C] [3bkz_B] [3bkz_A] SWISS-PROT database: [P05050] Domain organization of [ALKB_ECOLI] by SWISSPFAM

Other resources with information on 3BKZ

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

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