4MFA Transferase Dna date Aug 27, 2013
title Structure Of Human Dna Polymerase Beta Complexed With Nicked Containing A Mismatched Template O6mg And Incoming Ttp
authors M.C.Koag, K.Min, A.F.Monzingo, S.Lee
compound source
Molecule: Dna Polymerase Beta
Chain: A
Ec: 2.7.7.7, 4.2.99.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Polb
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Template
Chain: T
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Template

Molecule: Up Primer
Chain: P
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Up Primer

Molecule: Dn Primer
Chain: D
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Dn Primer
symmetry Space Group: P 1 21 1
R_factor 0.212 R_Free 0.283
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.971 79.662 55.001 90.00 106.68 90.00
method X-Ray Diffractionresolution 2.27 Å
ligand 6OG, MG, NA, PO4 enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (72 Kb) [Save to disk]
  • Biological Unit Coordinates (4mfa.pdb1.gz) 67 Kb
  • LPC: Ligand-Protein Contacts for 4MFA
  • CSU: Contacts of Structural Units for 4MFA
  • Structure Factors (151 Kb)
  • Retrieve 4MFA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4MFA from S2C, [Save to disk]
  • Re-refined 4mfa structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4MFA 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 4MFA
  • 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 4MFA, from MSDmotif at EBI
  • Fold representative 4mfa from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4mfa_D] [4mfa_P] [4mfa_T] [4mfa] [4mfa_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4MFA: [HhH1] [POLXc ] by SMART
  • Other resources with information on 4MFA
  • Community annotation for 4MFA at PDBWiki (http://pdbwiki.org)

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