1PVO Transcription Rna date Jun 27, 2003
title X-Ray Crystal Structure Of Rho Transcription Termination Fac Complex With Ssrna Substrate And Anppnp
authors E.Skordalakes, J.M.Berger
compound source
Molecule: 5'-R(Pupc)-3'
Chain: G, H, J, K, L
Engineered: Yes
Synthetic: Yes

Molecule: Transcription Termination Factor Rho
Chain: A, B, C, D, E, F
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Rho
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet24b
symmetry Space Group: C 1 2 1
R_factor 0.271 R_Free 0.304
length a length b length c angle alpha angle beta angle gamma
119.249 204.649 147.788 90.00 96.54 90.00
method X-Ray Diffractionresolution 3.00 Å
ligand ANP enzyme
related structures by homologous chain: 1A63, 1PV4
F, A, D, C, E, B

Primary referenceStructure of the Rho transcription terminator: mechanism of mRNA recognition and helicase loading., Skordalakes E, Berger JM, Cell 2003 Jul 11;114(1):135-46. PMID:12859904
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (395 Kb) [Save to disk]
  • Biological Unit Coordinates (1pvo.pdb1.gz) 383 Kb
  • LPC: Ligand-Protein Contacts for 1PVO
  • CSU: Contacts of Structural Units for 1PVO
  • Likely Quarternary Molecular Structure file(s) for 1PVO
  • Structure Factors (527 Kb)
  • Retrieve 1PVO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PVO from S2C, [Save to disk]
  • Re-refined 1pvo structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PVO 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 1PVO
  • 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 1PVO, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pvoa1, region A:1-47 [Jmol] [rasmolscript] [script source]
        - Domain d1pvoa3, region A:129-417 [Jmol] [rasmolscript] [script source]
        - Domain d1pvoa2, region A:48-126 [Jmol] [rasmolscript] [script source]
        - Domain d1pvob2, region B:129-417 [Jmol] [rasmolscript] [script source]
        - Domain d1pvob1, region B:51-126 [Jmol] [rasmolscript] [script source]
        - Domain d1pvoc1, region C:1-47 [Jmol] [rasmolscript] [script source]
        - Domain d1pvoc3, region C:129-417 [Jmol] [rasmolscript] [script source]
        - Domain d1pvoc2, region C:48-126 [Jmol] [rasmolscript] [script source]
        - Domain d1pvod1, region D:1-47 [Jmol] [rasmolscript] [script source]
        - Domain d1pvod3, region D:129-417 [Jmol] [rasmolscript] [script source]
        - Domain d1pvod2, region D:48-126 [Jmol] [rasmolscript] [script source]
        - Domain d1pvoe1, region E:1-47 [Jmol] [rasmolscript] [script source]
        - Domain d1pvoe3, region E:129-417 [Jmol] [rasmolscript] [script source]
        - Domain d1pvoe2, region E:48-126 [Jmol] [rasmolscript] [script source]
        - Domain d1pvof1, region F:1-47 [Jmol] [rasmolscript] [script source]
        - Domain d1pvof3, region F:129-417 [Jmol] [rasmolscript] [script source]
        - Domain d1pvof2, region F:48-126 [Jmol] [rasmolscript] [script source]
  • Fold representative 1pvo 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: [1pvo_G] [1pvo_C] [1pvo_B] [1pvo_H] [1pvo_E] [1pvo_F] [1pvo_J] [1pvo] [1pvo_K] [1pvo_L] [1pvo_A] [1pvo_D]
  • SWISS-PROT database: [P0AG30]
  • Domain organization of [RHO_ECOLI] by SWISSPFAM
  • Domains found in 1PVO: [AAA] [CSP] [Rho_N ] by SMART
  • Other resources with information on 1PVO
  • Community annotation for 1PVO 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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