3UQ0 Transferase, Lyase Dna date Nov 18, 2011
title Crystal Structure Of The Post-Catalytic Product Complex Of P Lambda With An Ramp At The Primer Terminus.
authors R.A.Gosavi, A.F.Moon, T.A.Kunkel, L.C.Pedersen, K.Bebenek
compound source
Molecule: Dna Polymerase Lambda
Chain: A
Fragment: Loop Mutant Of Dna Polymerase Lambda
Synonym: Pol Lambda, Dna Polymerase Beta-2, Pol Beta2, Dna Kappa;
Ec: 2.7.7.7, 4.2.99.-
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Poll
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: 5'-D(Cpgpgpcptpgptpapcptpg)-3'
Chain: T
Engineered: Yes

Synthetic: Yes

Molecule: 5'-D(Cpapgptpapcp)-R(Pa)-3'
Chain: P
Engineered: Yes

Synthetic: Yes

Molecule: 5'-D(Pgpcpcpg)-3'
Chain: D
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.195 R_Free 0.239
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.843 64.241 139.290 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.14 Å
ligand CL, EDO, NA, SO4 enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe catalytic cycle for ribonucleotide incorporation by human DNA Pol lambda, Gosavi RA, Moon AF, Kunkel TA, Pedersen LC, Bebenek K, Nucleic Acids Res. 2012 May 14. PMID:22584622
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (69 Kb) [Save to disk]
  • Biological Unit Coordinates (3uq0.pdb1.gz) 64 Kb
  • LPC: Ligand-Protein Contacts for 3UQ0
  • CSU: Contacts of Structural Units for 3UQ0
  • Structure Factors (260 Kb)
  • Retrieve 3UQ0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3UQ0 from S2C, [Save to disk]
  • Re-refined 3uq0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3UQ0 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 3UQ0
  • 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 3UQ0, from MSDmotif at EBI
  • Fold representative 3uq0 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3uq0_A] [3uq0] [3uq0_T] [3uq0_P] [3uq0_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3UQ0: [HhH1] [POLXc ] by SMART
  • Other resources with information on 3UQ0
  • Community annotation for 3UQ0 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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