3SQ5	Hydrolase	date	Jul 04, 2011
title	Crystal Structure Analysis Of The Yeast Tyrosyl-Dna Phosphod H432n Mutant
authors	S.Gajewski, S.W.White
compound		source
Molecule: Tyrosyl-Dna Phosphodiesterase 1 Chain: A, B, C, D Fragment: Unp Residues 79-539 Synonym: Tyr-Dna Phosphodiesterase 1 Ec: 3.1.4.- Engineered: Yes Mutation: Yes		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: Atcc 204508 S288c Gene: Tdp1, Ybr223c, Ybr1520 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet23
symmetry	Space Group: P 1	R_factor 0.203 R_Free 0.236
crystal cell	length a length b length c angle alpha angle beta angle gamma 64.453 82.036 98.677 89.80 94.33 112.78
method	X-Ray Diffraction	resolution	2.30 Å
ligand		enzyme	Hydrolase E.C.3.1.4 BRENDA
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Analysis of the Active-Site Mechanism of Tyrosyl-DNA Phosphodiesterase I: A Member of the Phospholipase D Superfamily., Gajewski S, Comeaux EQ, Jafari N, Bharatham N, Bashford D, White SW, van Waardenburg RC, J Mol Biol. 2011 Dec 6. PMID:22155078

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (573 Kb) [Save to disk] Biological Unit Coordinates (3sq5.pdb1.gz) 144 Kb Biological Unit Coordinates (3sq5.pdb2.gz) 145 Kb Biological Unit Coordinates (3sq5.pdb3.gz) 146 Kb Biological Unit Coordinates (3sq5.pdb4.gz) 145 Kb Biological Unit Coordinates (3sq5.pdb5.gz) 285 Kb Biological Unit Coordinates (3sq5.pdb6.gz) 286 Kb CSU: Contacts of Structural Units for 3SQ5 Structure Factors (1523 Kb) Retrieve 3SQ5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3SQ5 from S2C, [Save to disk] Re-refined 3sq5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3SQ5 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 3SQ5

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 3SQ5, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3sq5_A] [3sq5_B] [3sq5_D] [3sq5] [3sq5_C] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 3SQ5

Community annotation for 3SQ5 at PDBWiki (http://pdbwiki.org)

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