2W8L	Transferase Dna	date	Jan 16, 2009
title	Y-Family Dna Polymerase Dpo4 Bypassing N2-Naphthyl-Guanine A Anti Orientation
authors	R.L.Eoff, H.Zhang, M.Egli, F.P.Guengerich
compound		source
Molecule: Dna Polymerase Iv Chain: A Ec: 2.7.7.7 Engineered: Yes Other_details: Y-Family Dna Polymerase From Sulfolobus Solf		Organism_scientific: Sulfolobus Solfataricus Organism_taxid: 273057 Strain: P2 Atcc: 35092 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_plasmid: Pet22b
Molecule: 5'-D(Gpgpgpgpgpapapgpgpap Tptpcpdoc Chain: P Synonym: Primer Dna Engineered: Yes Other_details: 14 Base Primer Dna 5'-Ggg Gga Agg Att Cc-3'		Synthetic: Yes
Molecule: 5'-D(Tpcpapcpn2gpgpapaptpcp Cptptpcpcpcpcpc)-3'; Chain: T Synonym: Template Dna Engineered: Yes Other_details: 18 Base Template Dna 5'-Tca C(Npg)G Aat Cct		Synthetic: Yes
symmetry	Space Group: P 21 21 2	R_factor 0.226 R_Free 0.282
crystal cell	length a length b length c angle alpha angle beta angle gamma 95.919 103.832 52.493 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.00 Å
ligand	DGT, DOC, MG, N2G	enzyme	Transferase E.C.2.7.7.7 BRENDA
note	2W8L supersedes 2V4T
Gene Ontology	Chain Function Process Component A
Primary reference	Versatility of Y-family sulfolobus solfataricus DNA polymerase Dpo4 in translesion synthesis past bulky N2-Alkyl guanine adducts., Zhang H, Eoff RL, Kozekov ID, Rizzo CJ, Egli M, Guengerich FP, J Biol Chem. 2008 Dec 4. PMID:19059910

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk] Biological Unit Coordinates (2w8l.pdb1.gz) 70 Kb LPC: Ligand-Protein Contacts for 2W8L CSU: Contacts of Structural Units for 2W8L Likely Quarternary Molecular Structure file(s) for 2W8L Structure Factors (55 Kb) Retrieve 2W8L in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2W8L from S2C, [Save to disk] Re-refined 2w8l structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2W8L 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 2W8L

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 2W8L, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2w8l_A] [2w8l_T] [2w8l] [2w8l_P] SWISS-PROT database: [Q97W02] Domain organization of [DPO42_SULSO] by SWISSPFAM

Other resources with information on 2W8L

Community annotation for 2W8L at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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