1VJ7

Crystal structure of the bifunctional catalytic fragment of RelSeq, the RelA/SpoT homolog from Streptococcus equisimilis.

Structural Biology Knowledgebase: 1VJ7 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.272
  • R-Value Work: 0.236

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1VJ7

Classification: HYDROLASE TRANSFERASE

Total Structure Weight: 92715.07

Macromolecule Entities
Molecule Chains Length Organism Details
Bifunctional RELA/SPOT A, B 393 Streptococcus dysgalactiae EC#: 2.7.6.5 IUBMB 3.1.7.2 IUBMB
Fragment: (p)ppGpp-3'-pyrophosphohydrolase and (p)ppGpp-synthetase subdomains
Gene Name(s): relA rel
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GPX
Query on GPX

B GUANOSINE 5'-DIPHOSPHATE 2':3'-CYCLIC MONOPHOSPHATE
C10 H14 N5 O13 P3
NGYWTCOGOZELRS-UUOKFMHZSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GDP
Query on GDP

A, B GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A, B MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.272
  • R-Value Work: 0.236
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 173.49 α = 90.00
b = 45.45 β = 109.83
c = 126.47 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-02-03
  • Released Date: 2004-05-04
  • Deposition author(s): Hogg, T., Mechold, U., Malke, H., Cashel, M., Hilgenfeld, R.

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Refinement description | Details: Fixed TLS group
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4