1PHJ Dna Binding Protein Dna date May 29, 2003
title Crystal Structure Of The Oxytricha Nova Telomere End-Binding Complexed With Noncognate Ssdna Gg(3dr)Gttttgggg
authors D.L.Theobald, S.C.Schultz
compound source
Molecule: 5'-D(Gpgpgpgptptptptpgpgpgpgpt)-3'
Chain: G, H
Engineered: Yes
Other_details: 3' Terminal Single Strand Dna Sequence Of Ma Telomeres.;
 Synthetic: Yes

Molecule: 5'-D(Gpgp(3dr)Pgptptptptpgpgpgpg)-3'
Chain: D
Engineered: Yes
Mutation: Yes
Other_details: 3' Terminal Single Strand Dna Sequence Of Ma Telomeres, G To 3dr Substitution.;
Synthetic: Yes

Molecule: Telomere-Binding Protein Alpha Subunit
Chain: A
Synonym: Telomere-Binding Protein 56 Kda Subunit, Tebp Alph
Engineered: Yes
Organism_scientific: Sterkiella Nova
Organism_taxid: 200597
Gene: Mac-56a And Mac-56k And Mac-56s
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pkkt7

Molecule: Telomere-Binding Protein Beta Subunit
Chain: B
Fragment: Residues 9-224
Synonym: Telomere-Binding Protein 41 Kda Subunit, Tebp Beta
Engineered: Yes
Organism_scientific: Sterkiella Nova
Organism_taxid: 200597
Gene: Mac-41a And Mac-41s
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pkkt7
symmetry Space Group: P 61 2 2
R_factor 0.246 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
93.481 93.481 423.487 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.50 Å
ligand 3DR enzyme
related structures by homologous chain: 1PH1, 1PH9
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceNucleotide shuffling and ssDNA recognition in Oxytricha nova telomere end-binding protein complexes., Theobald DL, Schultz SC, EMBO J 2003 Aug 15;22(16):4314-24. PMID:12912928
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (132 Kb) [Save to disk]
  • Biological Unit Coordinates (1phj.pdb1.gz) 126 Kb
  • LPC: Ligand-Protein Contacts for 1PHJ
  • CSU: Contacts of Structural Units for 1PHJ
  • Likely Quarternary Molecular Structure file(s) for 1PHJ
  • Structure Factors (733 Kb)
  • Retrieve 1PHJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PHJ from S2C, [Save to disk]
  • Re-refined 1phj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1PHJ 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 1PHJ
  • 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
  • 3D motif for 1PHJ, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1phja2, region A:205-328 [Jmol] [rasmolscript] [script source]
        - Domain d1phja3, region A:329-492 [Jmol] [rasmolscript] [script source]
        - Domain d1phja1, region A:35-204 [Jmol] [rasmolscript] [script source]
        - Domain d1phjb_, region B [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1phj_G] [1phj_B] [1phj_H] [1phj] [1phj_D] [1phj_A]
  • SWISS-PROT database: [P29549] [P16458]
  • Domain organization of [TEBA_OXYNO] [TEBB_OXYNO] by SWISSPFAM
  • Domain found in 1PHJ: [Telo_bind ] by SMART
    • Other resources with information on 1PHJ
  • Community annotation for 1PHJ at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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