1VJ7 Hydrolase, Transferase date Feb 03, 2004
title Crystal Structure Of The Bifunctional Catalytic Fragment Of The Relaspot Homolog From Streptococcus Equisimilis.
authors T.Hogg, U.Mechold, H.Malke, M.Cashel, R.Hilgenfeld
compound source
Molecule: Bifunctional Relaspot
Chain: A, B
Fragment: (P)Ppgpp-3'-Pyrophosphohydrolase And (P)Ppgpp-Syn Subdomains;
Synonym: Atp:Gtp 3'- Pyrophosphotransferase, Ppgpp Syntheta Ppgpp Synthetase, Stringent Response-Like Protein;
Ec: 3.1.7.2, 2.7.6.5
Engineered: Yes
Organism_scientific: Streptococcus Dysgalactiae Subsp. Equi
Organism_taxid: 119602
Strain: Subsp. Equisimilis
Gene: Rela, Rel, Spot, Rsh
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(Lambda De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-21(+)-Penh385
symmetry Space Group: C 1 2 1
R_factor 0.236 R_Free 0.272
crystal
cell
length a length b length c angle alpha angle beta angle gamma
173.490 45.450 126.470 90.00 109.83 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand GDP, GPX, MN enzyme Hydrolase E.C.3.1.7.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceConformational antagonism between opposing active sites in a bifunctional RelA/SpoT homolog modulates (p)ppGpp metabolism during the stringent response., Hogg T, Mechold U, Malke H, Cashel M, Hilgenfeld R, Cell 2004 Apr 2;117(1):57-68. PMID:15066282
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (120 Kb) [Save to disk]
  • Biological Unit Coordinates (1vj7.pdb1.gz) 59 Kb
  • Biological Unit Coordinates (1vj7.pdb2.gz) 55 Kb
  • LPC: Ligand-Protein Contacts for 1VJ7
  • CSU: Contacts of Structural Units for 1VJ7
  • Likely Quarternary Molecular Structure file(s) for 1VJ7
  • Structure Factors (520 Kb)
  • Retrieve 1VJ7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1VJ7 from S2C, [Save to disk]
  • Re-refined 1vj7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1VJ7 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 1VJ7
  • 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 1VJ7, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1vj7a2, region A:197-371 [Jmol] [rasmolscript] [script source]
        - Domain d1vj7a1, region A:5-196 [Jmol] [rasmolscript] [script source]
        - Domain d1vj7b2, region B:197-370 [Jmol] [rasmolscript] [script source]
        - Domain d1vj7b1, region B:5-196 [Jmol] [rasmolscript] [script source]
  • Fold representative 1vj7 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1vj7] [1vj7_A] [1vj7_B]
  • SWISS-PROT database: [Q54089]
  • Domain organization of [RELA_STREQ] by SWISSPFAM
  • Domains found in 1VJ7: [HDc] [RelA_SpoT ] by SMART
  • Other resources with information on 1VJ7
  • Community annotation for 1VJ7 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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