1TQW

Golgi alpha-Mannosidase II In Complex With A Diastereomer of Seleno-Salacinol

Structural Biology Knowledgebase: 1TQW SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.2 Å
  • R-Value Free: 0.184
  • R-Value Work: 0.175

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1TQW

Classification: HYDROLASE

Total Structure Weight: 120606.20

Macromolecule Entities
Molecule Chains Length Organism Details
Alpha-mannosidase II A 1045 Drosophila melanogaster EC#: 3.2.1.114 IUBMB
Fragment: FAMILY 38 CATALYTIC DOMAIN
Mutation: E907K
Gene Name(s): alpha-Man-II GmII CG18802

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
BLT
Query on BLT

A 1,4-DIDEOXY-1,4-[[2R,3R)-2,4-DIHYDROXY-3- (SULFOXY)BUTYL]EPISELENONIUMYLIDENE]-D-ARABINITOL INNER SALT
DIASTEREOMER OF SELENO-SALACINOL (Synonym)
C9 H18 O9 S Se
WLNWUNIGATZIKW-KNCZUUIASA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MRD
Query on MRD

A (4R)-2-METHYLPENTANE-2,4-DIOL
C6 H14 O2
SVTBMSDMJJWYQN-RXMQYKEDSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
BLT N/A in BindingDB
IC50: 7500000 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.2 Å
  • R-Value Free: 0.184
  • R-Value Work: 0.175
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 69.01 α = 90.00
b = 110.04 β = 90.00
c = 138.95 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-06-18
  • Released Date: 2005-02-01
  • Deposition author(s): Kuntz, D.A., Ghavami, A., Johnston, B.D., Pinto, B.M., Rose, D.R.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update