1E6Q

MYROSINASE FROM SINAPIS ALBA with the bound transition state analogue gluco-tetrazole

Structural Biology Knowledgebase: 1E6Q SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.146
  • R-Value Work: 0.119

Literature

Macromolecules
Sequence Display for 1E6Q

Classification: HYDROLASE

Total Structure Weight: 62192.82

Macromolecule Entities
Molecule Chains Length Organism Details
MYROSINASE MA1 M 501 Sinapis alba EC#: 3.2.1.147 IUBMB
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 9 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAG
Query on NAG

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

M NOJIRIMYCINE TETRAZOLE
C6 H10 N4 O4
UCJXQRFJERKPOZ-SQOUGZDYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BMA
Query on BMA

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

M ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FUC
Query on FUC

M ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
XYP
Query on XYP

M BETA-D-XYLOPYRANOSE
C5 H10 O5
SRBFZHDQGSBBOR-KKQCNMDGSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

M SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

M GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

M ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
NTZ N/A in BindingDB
Ki: 700000 nM  BindingMOAD
Ki: 700000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.146
  • R-Value Work: 0.119
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 135.30 α = 90.00
b = 137.20 β = 90.00
c = 80.60 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-08-22
  • Released Date: 2001-01-05
  • Deposition author(s): Burmeister, W.P.

Revision History

  • 2015-01-21
    Type: Linkage | Details: CONECT, LINK
  • 2011-10-19
    Type: Other | Details: REMARK 375,REMARK 465,REMARK 999,REMARK 525
  • 2011-10-19
    Type: Binding sites and description | Details: REMARK 800,SITE
  • 2011-10-19
    Type: Biological assembly | Details: REMARK 300,REMARK 350
  • 2011-10-19
    Type: Version format compliance | Details: REMARK 4
  • 2011-10-19
    Type: Function and keywords | Details: KEYWDS
  • 2011-10-19
    Type: Sequence database correspondence | Details: DBREF
  • 2011-10-19
    Type: Non-polymer description | Details: HETSYN,FORMUL
  • 2011-10-19
    Type: Geometry validation | Details: REMARK 500
  • 2011-10-19
    Type: Polymer description | Details: COMPND