1E7J Protein Dna date Aug 29, 2000
title Hmg-D Complexed To A Bulge Dna
authors R.Cerdan, D.Payet, J.C.Yang, A.A.Travers, D.Neuhaus
compound source
Molecule: High Mobility Group Protein D
Chain: A
Fragment: Hmg-D Domain
Synonym: Hmg-D
Engineered: Yes
Organism_scientific: Drosophila Melanogaster
Organism_common: Fruit Fly
Organism_taxid: 7227
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pet13a

Molecule: Dna (5'-D(Cpgpaptpaptptpapapgpapgpcpc)-3');
Chain: B

Synthetic: Non-Biological Sequence

Molecule: Dna (5'-D(Gpgpcptpcpapaptpaptpcpg)-3');
Chain: C

Synthetic: Non-Biological Sequence
methodSolution NMR
related structures by homologous chain: 1HMA
Primary referenceHMG-D complexed to a bulge DNA: an NMR model., Cerdan R, Payet D, Yang JC, Travers AA, Neuhaus D, Protein Sci 2001 Mar;10(3):504-18. PMID:11344319
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (331 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 1E7J
  • Original NMR restraints for 1E7J from PDB
  • Retrieve 1E7J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1E7J from S2C, [Save to disk]
  • View 1E7J 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 1E7J
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1E7J, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1e7ja_, 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: [1e7j] [1e7j_C] [1e7j_B] [1e7j_A]
  • SWISS-PROT database: [Q05783]
  • Domain organization of [HMGD_DROME] by SWISSPFAM
  • Domain found in 1E7J: [HMG ] by SMART
  • Other resources with information on 1E7J
  • Community annotation for 1E7J 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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