1ODZ

EXPANSION OF THE GLYCOSYNTHASE REPERTOIRE TO PRODUCE DEFINED MANNO-OLIGOSACCHARIDES

Structural Biology Knowledgebase: 1ODZ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.177
  • R-Value Work: 0.151

Literature

Macromolecules
Sequence Display for 1ODZ

Classification: HYDROLASE

Total Structure Weight: 88457.77

Macromolecule Entities
Molecule Chains Length Organism Details
MANNANASE A A, B 386 Cellvibrio japonicus EC#: 3.2.1.78 IUBMB
Fragment: RESIDUES 39-423
Mutation: E320G
Details: COMPLEX WITH MANNOBIOSE
Gene Name(s): manA man26A CJA_2770
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
BMA
Query on BMA

A, B BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

A, B ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
TRS
Query on TRS

A, B 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
TRIS BUFFER (Synonym)
C4 H12 N O3
LENZDBCJOHFCAS-UHFFFAOYSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A, B SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.177
  • R-Value Work: 0.151
  • Space Group: P 41
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 131.85 α = 90.00
b = 131.85 β = 90.00
c = 54.27 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-03-17
  • Released Date: 2003-07-10
  • Deposition author(s): Jahn, M., Stoll, D., Warren, R.A.J., Szabo, L., Singh, P., Gilbert, H.J., Ducros, V.M.A., Davies, G.J., Withers, S.G.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4