1PER Transcription Dna date Nov 09, 1993
title The Complex Between Phage 434 Repression Dna-Binding Domain And Operator Site Or3: Structural Differences Between Consensus And Non-Consensus Half-Sites
authors D.W.Rodgers, S.C.Harrison
compound source
Molecule: Dna (5'- D(Apapgptpapcpapgptptptptptpcptptpg Ptpapt)-3');
Chain: A
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'- D(Tpaptpapcpapapgpapapapapapcptpgpt Papcpt)-3');
Chain: B
Engineered: Yes

Synthetic: Yes

Molecule: Protein (434 Repressor)
Chain: L, R

Organism_scientific: Phage 434
Organism_taxid: 10712
symmetry Space Group: P 21 21 21
R_factor
R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
150.900 64.500 27.800 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
related structures by homologous chain: 1RPE, 2OR1
Gene
Ontology
ChainFunctionProcessComponent
R, L


Primary referenceThe complex between phage 434 repressor DNA-binding domain and operator site OR3: structural differences between consensus and non-consensus half-sites., Rodgers DW, Harrison SC, Structure 1993 Dec 15;1(4):227-40. PMID:8081737
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (41 Kb) [Save to disk]
  • Biological Unit Coordinates (1per.pdb1.gz) 37 Kb
  • CSU: Contacts of Structural Units for 1PER
  • Likely Quarternary Molecular Structure file(s) for 1PER
  • Retrieve 1PER in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PER from S2C, [Save to disk]
  • View 1PER 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 1PER
  • 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 1PER, from MSDmotif at EBI
  • Genome occurence of 1PER's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1perl_, region L [Jmol] [rasmolscript] [script source]
        - Domain d1perr_, region R [Jmol] [rasmolscript] [script source]
  • Fold representative 1per 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: [1per] [1per_B] [1per_R] [1per_A] [1per_L]
  • SWISS-PROT database: [P16117]
  • Domain organization of [RPC1_BP434] by SWISSPFAM
  • Domain found in 1PER: [HTH_XRE ] by SMART
  • Other resources with information on 1PER
  • Community annotation for 1PER 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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