3EEI

Crystal structure of 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase from neisseria meningitidis in complex with methylthio-immucillin-A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.78 Å
  • R-Value Free: 0.215 
  • R-Value Work: 0.184 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase from neisseria meningitidis in complex with methylthio-immucillin-A

Ho, M.Rinaldo-matthis, A.Brown, R.L.Norris, G.E.Tyler, P.C.Furneaux, R.H.Almo, S.C.Schramm, V.L.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
5-methylthioadenosine nucleosidase/S-adenosylhomocysteine nucleosidase
A, B
233Neisseria meningitidis serogroup B (strain MC58)Mutation(s): 0 
Gene Names: pfs (mtnN)
EC: 3.2.2.9
Find proteins for Q9K054 (Neisseria meningitidis serogroup B (strain MC58))
Go to UniProtKB:  Q9K054
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MTM
Query on MTM

Download SDF File 
Download CCD File 
A, B
(3S,4R)-2-(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL)-5-[(METHYLSULFANYL)METHYL]PYRROLIDINE-3,4-DIOL
(1S)-1-(9-DEAZAADENIN-9-YL)-1,4,5-TRIDEOXY-1,4-IMINO-5-METHYLTHIO-D-RIBITOL
C12 H19 N5 O2 S
YLCQGEBEQIBOOJ-BOFBLULFSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.78 Å
  • R-Value Free: 0.215 
  • R-Value Work: 0.184 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 128.359α = 90.00
b = 40.897β = 109.22
c = 83.612γ = 90.00
Software Package:
Software NamePurpose
CBASSdata collection
MOLREPphasing
SCALEPACKdata scaling
HKL-2000data reduction
REFMACrefinement
PDB_EXTRACTdata extraction
DENZOdata reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-09-08
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2017-10-25
    Type: Refinement description