1E6S

MYROSINASE FROM SINAPIS ALBA WITH BOUND GLUCO-HYDROXIMOLACTAM AND SULFATE

Structural Biology Knowledgebase: 1E6S SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.152
  • R-Value Work: 0.120

Literature

Macromolecules
Sequence Display for 1E6S

Classification: HYDROLASE

Total Structure Weight: 62278.89

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)
GOX
Query on GOX

M (2S,3S,4R,5R)-6-(HYDROXYAMINO)-2-(HYDROXYMETHYL)- 2,3,4,5-TETRAHYDROPYRIDINE-3,4,5-TRIOL
5-LACTAM, (Synonym)
C6 H12 N2 O5
VBXHGXTYZGYTQG-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 %)
GOX N/A in BindingDB
Ki: 600000 nM  BindingMOAD
Ki: 600000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.152
  • R-Value Work: 0.120
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

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: 2000-08-23
  • Released Date: 2000-09-06
  • Deposition author(s): Burmeister, W.P.

Revision History

  • 2011-08-10
    Type: Non-polymer description | Details: HETSYN,FORMUL,REMARK 620,HETNAM,HET
  • 2011-08-10
    Type: Geometry validation | Details: REMARK 500
  • 2011-08-10
    Type: Version format compliance | Details: REMARK 4
  • 2011-08-10
    Type: Polymer description | Details: COMPND
  • 2011-08-10
    Type: Citation | Details: REMARK 1,JRNL
  • 2011-08-10
    Type: Other | Details: REMARK 375,ANISOU,REMARK 465,HEADER,REMARK 999,REMARK 525,MASTER,REMARK 280
  • 2011-08-10
    Type: Atom nomenclature | Details: HETATM
  • 2011-08-10
    Type: Biological assembly | Details: REMARK 300,REMARK 350
  • 2011-08-10
    Type: Linkage | Details: CONECT,LINK
  • 2011-08-10
    Type: Function and keywords | Details: KEYWDS
  • 2011-08-10
    Type: Sequence database correspondence | Details: DBREF
  • 2011-08-10
    Type: Binding sites and description | Details: REMARK 800,SITE