1Q39	Hydrolase	date	Jul 29, 2003
title	Crystal Structure Of The Dna Repair Enzyme Endonuclease-Viii From E. Coli: The Wt Enzyme At 2.8 Resolution.
authors	G.Golan, D.O.Zharkov, H.Feinberg, A.S.Fernandes, E.I.Zaika, J.H.K A.P.Grollman, G.Shoham
compound		source
Molecule: Endonuclease Viii Chain: A Ec: 3.2.2.- Engineered: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 562 Gene: Nei Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: B834(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet13a
symmetry	Space Group: I 2 2 2	R_factor 0.216 R_Free 0.299
crystal cell	length a length b length c angle alpha angle beta angle gamma 57.721 79.578 169.653 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.80 Å
ligand	CA, ZN	enzyme	Hydrolase E.C.3.2.2 BRENDA
related structures	by homologous chain: 1Q3C
Gene Ontology	Chain Function Process Component A endonuclease activity
Primary reference	Structure of the uncomplexed DNA repair enzyme endonuclease VIII indicates significant interdomain flexibility., Golan G, Zharkov DO, Feinberg H, Fernandes AS, Zaika EI, Kycia JH, Grollman AP, Shoham G, Nucleic Acids Res 2005 Sep 6;33(15):5006-16. Print 2005. PMID:16145054

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (47 Kb) [Save to disk] Biological Unit Coordinates (1q39.pdb1.gz) 41 Kb Biological Unit Coordinates (1q39.pdb2.gz) 161 Kb LPC: Ligand-Protein Contacts for 1Q39 CSU: Contacts of Structural Units for 1Q39 Likely Quarternary Molecular Structure file(s) for 1Q39 Retrieve 1Q39 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1Q39 from S2C, [Save to disk]

View 1Q39 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 1Q39

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1Q39, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1q39a1, region A:125-213 [Jmol] [rasmolscript] [script source]     - Domain d1q39a3, region A:217-262 [Jmol] [rasmolscript] [script source]     - Domain d1q39a2, region A:4-124 [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1q39] [1q39_A] SWISS-PROT database: [P50465] Domain organization of [END8_ECOLI] by SWISSPFAM Domains found in 1Q39: [Fapy_DNA_glyco] [H2TH ] by SMART

Other resources with information on 1Q39

Community annotation for 1Q39 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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