1D8K Gene Regulation date Oct 25, 1999
title Solution Structure Of The Central Core Domain Of Tfiie Beta
authors M.Okuda, Y.Watanabe, H.Okamura, F.Hanaoka, Y.Ohkuma, Y.Nishimura, Riken Structural Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: General Transcription Factor Tfiie-Beta
Chain: A
Fragment: Central Core Domain
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_plasmid: Pet3a
methodSolution NMR
related structures by homologous chain: 1D8J
Primary referenceStructure of the central core domain of TFIIEbeta with a novel double-stranded DNA-binding surface., Okuda M, Watanabe Y, Okamura H, Hanaoka F, Ohkuma Y, Nishimura Y, EMBO J 2000 Mar 15;19(6):1346-56. PMID:10716934
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (26 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 1D8K
  • Experimental data, such as chemical shifts, at BioMagResBank (BMRB)
  • NMR Restraints Grid from BioMagResBank (BMRB)
  • Retrieve 1D8K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1D8K from S2C, [Save to disk]
  • View 1D8K 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 1D8K
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1D8K, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1d8ka_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1d8k from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1d8k_A] [1d8k]
  • SWISS-PROT database: [P29084]
  • Domain organization of [T2EB_HUMAN] by SWISSPFAM
  • Other resources with information on 1D8K
  • Community annotation for 1D8K at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1D8K from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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