1ITY Dna Binding Protein date Feb 15, 2002
title Solution Structure Of The Dna Binding Domain Of Human Trf1
authors T.Nishikawa, H.Okamura, A.Nagadoi, P.Konig, D.Rhodes, Y.Nishimura Structural Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: Trf1
Chain: A
Fragment: Dna Binding Domain
Synonym: Telomeric Repeat Binding Factor 1
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Trf1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet13a
methodSolution NMR
related structures by homologous chain: 1IV6, 1W0T
Primary referenceSolution structure of a telomeric DNA complex of human TRF1., Nishikawa T, Okamura H, Nagadoi A, Konig P, Rhodes D, Nishimura Y, Structure (Camb) 2001 Dec;9(12):1237-51. PMID:11738049
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (477 Kb) [Save to disk]
  • Biological Unit Coordinates (1ity.pdb1.gz) 19 Kb
  • CSU: Contacts of Structural Units for 1ITY
  • Original NMR restraints for 1ITY from PDB
  • Experimental data, such as chemical shifts, at BioMagResBank (BMRB)
  • NMR Restraints Grid from BioMagResBank (BMRB)
  • Retrieve 1ITY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1ITY from S2C, [Save to disk]
    • View 1ITY 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 1ITY
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1ITY, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1itya_, region A [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: [1ity] [1ity_A]
  • SWISS-PROT database: [P54274]
  • Domain organization of [TERF1_HUMAN] by SWISSPFAM
  • Domain found in 1ITY: [SANT ] by SMART
    • Other resources with information on 1ITY
  • Community annotation for 1ITY at PDBWiki (http://pdbwiki.org)
  • NMR Ensemble (OLDERADO: core, domain and representative structure database)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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