2ASL Transferase Dna date Aug 23, 2005
title Oxog-Modified Postinsertion Binary Complex
authors O.Rechkoblit, L.Malinina, Y.Cheng, V.Kuryavyi, S.Broyde, N.E.Geac D.J.Patel
compound source
Molecule: 5'-D(Gpgptptpgpgpaptpgpgptpapgp(Doc
Chain: D, H
Engineered: Yes
Other_details: Primer Strand (Dideoxy-Terminated At 3'-End)
Synthetic: Yes

Molecule: 5'-D(Cptapapcp(8og) Pcptpapcpcpaptpcpcpapapcpc)-3';
Chain: E, J
Engineered: Yes
Other_details: Oxog-Modified Template Strand

Synthetic: Yes

Molecule: Dna Polymerase Iv
Chain: A, B
Synonym: Pol Iv
Ec: 2.7.7.7
Engineered: Yes

Organism_scientific: Sulfolobus Solfataricus
Organism_taxid: 2287
Gene: Dbh, Dpo4
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)-Ril (Stratagene)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-28a
symmetry Space Group: P 1 21 1
R_factor 0.232 R_Free 0.287
crystal
cell
length a length b length c angle alpha angle beta angle gamma
73.218 101.024 84.925 90.00 97.16 90.00
method X-Ray Diffractionresolution 2.65 Å
ligand 8OG, CA, DOC enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStepwise Translocation of Dpo4 Polymerase during Error-Free Bypass of an oxoG Lesion., Rechkoblit O, Malinina L, Cheng Y, Kuryavyi V, Broyde S, Geacintov NE, Patel DJ, PLoS Biol. 2006 Jan 3;4(1):e11. PMID:16379496
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (145 Kb) [Save to disk]
  • Biological Unit Coordinates (2asl.pdb1.gz) 70 Kb
  • Biological Unit Coordinates (2asl.pdb2.gz) 70 Kb
  • LPC: Ligand-Protein Contacts for 2ASL
  • CSU: Contacts of Structural Units for 2ASL
  • Likely Quarternary Molecular Structure file(s) for 2ASL
  • Structure Factors (226 Kb)
  • Retrieve 2ASL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2ASL from S2C, [Save to disk]
  • Re-refined 2asl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2ASL 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 2ASL
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2ASL, from MSDmotif at EBI
  • Fold representative 2asl from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2asl_B] [2asl_E] [2asl_H] [2asl_D] [2asl_A] [2asl_J] [2asl]
  • SWISS-PROT database: [Q97W02]
  • Domain organization of [DPO42_SULSO] by SWISSPFAM
  • Other resources with information on 2ASL
  • Community annotation for 2ASL at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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