4J19 Transcription Dna date Feb 01, 2013
title Structure Of A Novel Telomere Repeat Binding Protein Bound T
authors D.Kappei, F.Butter, C.Benda, M.Scheibe, I.Draskovic, M.Stevense, C Novo, C.Basquin, D.B.Krastev, R.Kittler, R.Jessberger, A.J.Londo Vallejo, M.Mann, F.Buchholz
compound source
Molecule: Homeobox-Containing Protein 1
Chain: A, B
Fragment: Dna-Binding Domain, Residues 233-345
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hmbox1
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'- D(Cptpgptptpapgpgpgptptpapgpgpgptptpapg)
Chain: C
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Tpcptpapapcpcpcptpapapcpcpcptpapapcpa)
Chain: D
Engineered: Yes

Synthetic: Yes
symmetry Space Group: C 2 2 21
R_factor 0.172 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
111.433 116.490 75.670 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand CL enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceHOT1 is a mammalian direct telomere repeat-binding protein contributing to telomerase recruitment., Kappei D, Butter F, Benda C, Scheibe M, Draskovic I, Stevense M, Novo CL, Basquin C, Araki M, Araki K, Krastev DB, Kittler R, Jessberger R, Londono-Vallejo JA, Mann M, Buchholz F, EMBO J. 2013 May 17. doi: 10.1038/emboj.2013.105. PMID:23685356
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (47 Kb) [Save to disk]
  • Biological Unit Coordinates (4j19.pdb1.gz) 42 Kb
  • LPC: Ligand-Protein Contacts for 4J19
  • CSU: Contacts of Structural Units for 4J19
  • Structure Factors (169 Kb)
  • Retrieve 4J19 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4J19 from S2C, [Save to disk]
  • Re-refined 4j19 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4J19 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 4J19
  • 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 4J19, from MSDmotif at EBI
  • Fold representative 4j19 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4j19_A] [4j19_D] [4j19_B] [4j19] [4j19_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4J19: [HOX ] by SMART
  • Other resources with information on 4J19
  • Community annotation for 4J19 at PDBWiki (http://pdbwiki.org)

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