4JWT

Crystal structure of a putative 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase from Sulfurimonas denitrificans DSM 1251 (Target NYSGRC-029304 )


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.193 
  • R-Value Work: 0.177 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of a putative 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase from Sulfurimonas denitrificans DSM 1251

Sampathkumar, P.Gizzi, A.Ahmed, M.Banu, N.Bhosle, R.Bonanno, J.Chamala, S.Chowdhury, S.Fiser, A.Glenn, A.S.Hammonds, J.Hillerich, B.Khafizov, K.Lafleur, J.Suarez, J.Haapalainen, A.Love, J.D.Stead, M.Seidel, R.Toro, R.Schramm, V.L.Almo, S.C.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Methylthioadenosine nucleosidase
A
259Sulfurimonas denitrificans (strain ATCC 33889 / DSM 1251)Mutation(s): 0 
EC: 3.2.2.9
Find proteins for Q30QR2 (Sulfurimonas denitrificans (strain ATCC 33889 / DSM 1251))
Go to UniProtKB:  Q30QR2
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
ADE
Query on ADE

Download SDF File 
Download CCD File 
A
ADENINE
C5 H5 N5
GFFGJBXGBJISGV-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.193 
  • R-Value Work: 0.177 
  • Space Group: P 65 2 2
Unit Cell:
Length (Å)Angle (°)
a = 77.598α = 90.00
b = 77.598β = 90.00
c = 228.425γ = 120.00
Software Package:
Software NamePurpose
HKL-3000data reduction
SHELXEmodel building
REFMACrefinement
CBASSdata collection
SHELXDphasing
PDB_EXTRACTdata extraction
SCALEPACKdata scaling
SHELXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-05-08
    Type: Initial release
  • Version 1.1: 2013-11-27
    Type: Structure summary
  • Version 1.2: 2017-11-15
    Type: Refinement description