4I2H Transferase Dna date Nov 21, 2012
title Ternary Complex Of Mouse Tdt With Ssdna And Ampcpp
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;
Ec: 2.7.7.31
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(Papapapapa)-3'
Chain: C
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.194 R_Free 0.232
crystal
cell
length a length b length c angle alpha angle beta angle gamma
47.112 85.264 115.085 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.75 Å
ligand APC, MG, NA, ZN enzyme Transferase E.C.2.7.7.31 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


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] (122 Kb) [Save to disk]
  • Biological Unit Coordinates (4i2h.pdb1.gz) 116 Kb
  • LPC: Ligand-Protein Contacts for 4I2H
  • CSU: Contacts of Structural Units for 4I2H
  • Structure Factors (232 Kb)
  • Retrieve 4I2H in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4I2H from S2C, [Save to disk]
  • Re-refined 4i2h structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4I2H 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 4I2H
  • 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 4I2H, from MSDmotif at EBI
  • Fold representative 4i2h from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4i2h_C] [4i2h] [4i2h_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4I2H: [POLXc ] by SMART
  • Other resources with information on 4I2H
  • Community annotation for 4I2H at PDBWiki (http://pdbwiki.org)

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