3MGH Lyase,Transferase Dna date Apr 06, 2010
title Binary Complex Of A Dna Polymerase Lambda Loop Mutant
authors M.Garcia-Diaz, K.Bebenek, R.Z.Zhou, L.F.Povirk, T.Kunkel
compound source
Molecule: Dna Polymerase Lambda
Chain: A, C
Fragment: Loop Mutant Of Dna Polymerase Lambda
Synonym: Pol Lambda, Dna Polymerase Kappa, Dna Polymerase B Beta2;
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
Expression_system_strain: Bl21(De3)Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22

Molecule: Dna (5'-D(Cpgpgpcpapgptpapcptpg)-3')
Chain: T, E
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'-D(Cpapgptpapc)-3')
Chain: P, F
Engineered: Yes

Synthetic: Yes

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

Synthetic: Yes
symmetry Space Group: P 21 21 2
R_factor 0.209 R_Free 0.261
crystal
cell
length a length b length c angle alpha angle beta angle gamma
95.998 190.886 58.734 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand NA enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C


Primary referenceLoop 1 modulates the fidelity of DNA polymerase {lambda}, Bebenek K, Garcia-Diaz M, Zhou RZ, Povirk LF, Kunkel TA, Nucleic Acids Res. 2010 May 7. PMID:20435673
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (130 Kb) [Save to disk]
  • Biological Unit Coordinates (3mgh.pdb1.gz) 64 Kb
  • Biological Unit Coordinates (3mgh.pdb2.gz) 63 Kb
  • LPC: Ligand-Protein Contacts for 3MGH
  • CSU: Contacts of Structural Units for 3MGH
  • Structure Factors (312 Kb)
  • Retrieve 3MGH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MGH from S2C, [Save to disk]
  • Re-refined 3mgh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MGH 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 3MGH
  • 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 3MGH, from MSDmotif at EBI
  • Fold representative 3mgh from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mgh_D] [3mgh] [3mgh_E] [3mgh_A] [3mgh_F] [3mgh_G] [3mgh_T] [3mgh_P] [3mgh_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3MGH: [HhH1] [POLXc ] by SMART
  • Other resources with information on 3MGH
  • Community annotation for 3MGH 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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