4I28 Transferase Dna date Nov 21, 2012
title Binary Complex Of Mouse Tdt With Ssdna And Zn++
authors J.Gouge, M.Delarue
compound source
Molecule: Dna Nucleotidylexotransferase
Chain: A
Fragment: See Remark 999
Synonym: Terminal Addition Enzyme, Terminal Deoxynucleotidyltransferase, Tdt, Terminal Transferase;
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Dntt, Tdt
Expression_system: Escherichia Coli
Expression_system_taxid: 562

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

Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.163 R_Free 0.206
length a length b length c angle alpha angle beta angle gamma
46.824 84.799 115.773 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.15 Å
ligand MG, NA, ZN enzyme Transferase E.C. BRENDA
Primary referenceStructures of Intermediates along the Catalytic Cycle of Terminal Deoxynucleotidyltransferase: Dynamical Aspects of the Two-Metal Ion Mechanism., Gouge J, Rosario S, Romain F, Beguin P, Delarue M, J Mol Biol. 2013 Jul 13. pii: S0022-2836(13)00441-5. doi:, 10.1016/j.jmb.2013.07.009. PMID:23856622
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (137 Kb) [Save to disk]
  • Biological Unit Coordinates (4i28.pdb1.gz) 131 Kb
  • LPC: Ligand-Protein Contacts for 4I28
  • CSU: Contacts of Structural Units for 4I28
  • Structure Factors (984 Kb)
  • Retrieve 4I28 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4I28 from S2C, [Save to disk]
  • Re-refined 4i28 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4I28 in 3D
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  • Visual 3D analysis of 4I28
  • 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 4I28, from MSDmotif at EBI
  • Fold representative 4i28 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4i28_C] [4i28] [4i28_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4I28: [POLXc ] by SMART
  • Other resources with information on 4I28
  • Community annotation for 4I28 at PDBWiki (http://pdbwiki.org)

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