4FB3 Dna Binding Protein Dna date May 22, 2012
title Polyomavirus T-Ag Binds Symmetrical Repeats At The Viral Ori Asymmetrical Manner
authors A.Bohm, C.J.Harrison, B.S.Schaffhausen, T.Jiang
compound source
Molecule: Ori Dna Oligonucleotide-Crick Strand
Chain: C
Engineered: Yes
Synthetic: Yes
Other_details: Synthetic

Molecule: Ori Dna Oligonucleotide-Watson Strand
Chain: W
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic

Molecule: Large T Antigen
Chain: A, B, E
Fragment: Origin Binding Domain, Unp Residues 290-420
Synonym: Lt, Lt-Ag
Ec: 3.6.4.-
Engineered: Yes

Organism_scientific: Mouse Polyomavirus
Organism_common: Mpyv
Organism_taxid: 10634
Gene: Large T-Antigen
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Rosetta(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet30a
symmetry Space Group: C 2 2 21
R_factor 0.222 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
165.150 167.922 77.728 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.79 Å
ligand
enzyme Hydrolase E.C.3.6.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, E, B


Primary referencePolyomavirus Large T-antigen Binds Symmetrical Repeats at the Viral Origin in an Asymmetrical Manner., Harrison C, Jiang T, Banerjee P, Meinke G, D'Abramo CM, Schaffhausen B, Bohm A, J Virol. 2013 Oct 9. PMID:24109229
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (168 Kb) [Save to disk]
  • Biological Unit Coordinates (4fb3.pdb1.gz) 162 Kb
  • CSU: Contacts of Structural Units for 4FB3
  • Structure Factors (179 Kb)
  • Retrieve 4FB3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4FB3 from S2C, [Save to disk]
  • Re-refined 4fb3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4FB3 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 4FB3
  • 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 4FB3, from MSDmotif at EBI
  • Fold representative 4fb3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4fb3_E] [4fb3_C] [4fb3_W] [4fb3] [4fb3_B] [4fb3_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4FB3
  • Community annotation for 4FB3 at PDBWiki (http://pdbwiki.org)

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