1BDT Gene Regulation Dna date May 11, 1998
title Wild Type Gene-Regulating Protein Arcdna Complex
authors J.F.Schilbach, A.W.Karzai, B.E.Raumann, R.T.Sauer
compound source
Molecule: Dna (5'- D(Tpaptpapgptpapgpapgptpgpcptptpcptpaptp 3');
Chain: E
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'- D(Apaptpgpaptpapgpapapgpcpapcptpcptpapcp 3');
Chain: F
Engineered: Yes

Synthetic: Yes

Molecule: Protein (Gene-Regulating Protein Arc)
Chain: A, B, C, D
Engineered: Yes

Organism_scientific: Enterobacteria Phage P22
Organism_taxid: 10754
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Other_details: Synthetic Gene
symmetry Space Group: P 1 21 1
R_factor 0.236 R_Free 0.282
length a length b length c angle alpha angle beta angle gamma
62.130 56.410 52.330 90.00 104.14 90.00
method X-Ray Diffractionresolution 2.50 Å
related structures by homologous chain: 1MYK, 1PAR
A, D, C, B

Primary referenceOrigins of DNA-binding specificity: role of protein contacts with the DNA backbone., Schildbach JF, Karzai AW, Raumann BE, Sauer RT, Proc Natl Acad Sci U S A 1999 Feb 2;96(3):811-7. PMID:9927650
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (58 Kb) [Save to disk]
  • Biological Unit Coordinates (1bdt.pdb1.gz) 54 Kb
  • CSU: Contacts of Structural Units for 1BDT
  • Likely Quarternary Molecular Structure file(s) for 1BDT
  • Retrieve 1BDT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1BDT from S2C, [Save to disk]
  • View 1BDT 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 1BDT
  • 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 1BDT, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1bdta_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1bdtb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1bdtc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1bdtd_, region D [Jmol] [rasmolscript] [script source]
  • Fold representative 1bdt 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: [1bdt_D] [1bdt_A] [1bdt_F] [1bdt_B] [1bdt] [1bdt_E] [1bdt_C]
  • SWISS-PROT database: [P03050]
  • Domain organization of [RARC_BPP22] by SWISSPFAM
  • Other resources with information on 1BDT
  • Community annotation for 1BDT at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1BDT from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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