1BF4 Dna-Binding Protein Dna date May 27, 1998
title Chromosomal Dna-Binding Protein Sso7dd(Gcgaacgc) Complex
authors S.Su, Y.G.Gao, H.Robinson, S.Padmanabhan, L.Lim, J.W.Shriver, A.H
compound source
Molecule: Dna (5'-D(Gpcpgptp5iupcpgpc)-3')
Chain: B
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'-D(Gpcpgpapapcpgpc)-3')
Chain: C
Engineered: Yes

Synthetic: Yes

Molecule: Protein (Chromosomal Protein Sso7d)
Chain: A
Synonym: Dna-Binding Protein 7d, 7 Kd Dna-Binding Protein D
Engineered: Yes

Organism_scientific: Sulfolobus Acidocaldarius
Organism_taxid: 2285
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.211 R_Free 0.288
length a length b length c angle alpha angle beta angle gamma
46.870 49.670 37.650 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand 5IU enzyme
related structures by homologous chain: 1AZP, 1WTV

Primary referenceThe crystal structure of the hyperthermophile chromosomal protein Sso7d bound to DNA., Gao YG, Su SY, Robinson H, Padmanabhan S, Lim L, McCrary BS, Edmondson SP, Shriver JW, Wang AH, Nat Struct Biol 1998 Sep;5(9):782-6. PMID:9731772
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (23 Kb) [Save to disk]
  • Biological Unit Coordinates (1bf4.pdb1.gz) 19 Kb
  • LPC: Ligand-Protein Contacts for 1BF4
  • CSU: Contacts of Structural Units for 1BF4
  • Likely Quarternary Molecular Structure file(s) for 1BF4
  • Structure Factors (101 Kb)
  • Retrieve 1BF4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1BF4 from S2C, [Save to disk]
  • Re-refined 1bf4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1BF4 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 1BF4
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1BF4, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1bf4a_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1bf4 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: [1bf4_C] [1bf4_A] [1bf4] [1bf4_B]
  • SWISS-PROT database: [P13123]
  • Domain organization of [DN71_SULAC] by SWISSPFAM
  • Other resources with information on 1BF4
  • Community annotation for 1BF4 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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