3MR3 Transferase Dna date Apr 28, 2010
title Human Dna Polymerase Eta - Dna Ternary Complex With The 3'T In The Active Site (Tt1)
authors C.Biertumpfel, Y.Zhao, S.Ramon-Maiques, M.T.Gregory, J.Y.Lee, W.Y
compound source
Molecule: Dna Polymerase Eta
Chain: A
Fragment: Catalytic Core (Residues 1-432)
Synonym: Rad30 Homolog A, Xeroderma Pigmentosum Variant Typ
Ec: 2.7.7.7
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Polh, Rad30, Rad30a, Xpv
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28

Molecule: Dna (5'-D(Cpap(Ttd)Paptpgpapcpgpcpt)-3
Chain: T
Fragment: Dna Template
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'-D(Cpapgpcpgptpcpapt)-3')
Chain: P
Fragment: Dna Primer
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 61
R_factor 0.188 R_Free 0.205
crystal
cell
length a length b length c angle alpha angle beta angle gamma
98.243 98.243 82.306 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.75 Å
ligand DZ4, GOL, MG, TTD enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure and mechanism of human DNA polymerase eta., Biertumpfel C, Zhao Y, Kondo Y, Ramon-Maiques S, Gregory M, Lee JY, Masutani C, Lehmann AR, Hanaoka F, Yang W, Nature. 2010 Jun 24;465(7301):1044-8. PMID:20577208
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (100 Kb) [Save to disk]
  • Biological Unit Coordinates (3mr3.pdb1.gz) 93 Kb
  • LPC: Ligand-Protein Contacts for 3MR3
  • CSU: Contacts of Structural Units for 3MR3
  • Structure Factors (515 Kb)
  • Retrieve 3MR3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MR3 from S2C, [Save to disk]
  • Re-refined 3mr3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MR3 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 3MR3
  • 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 3MR3, from MSDmotif at EBI
  • Fold representative 3mr3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mr3_T] [3mr3_A] [3mr3_P] [3mr3]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 3MR3 with the sequences similar proteins can be viewed for 3MR3's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3MR3
  • Community annotation for 3MR3 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science