1W0P

Vibrio cholerae sialidase with alpha-2,6-sialyllactose

Structural Biology Knowledgebase: 1W0P SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Observed: 0.214

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1W0P

Classification: HYDROLASE

Total Structure Weight: 86359.30

Macromolecule Entities
Molecule Chains Length Organism Details
SIALIDASE A 781 Vibrio cholerae EC#: 3.2.1.18 IUBMB
Gene Name(s): nanH VC_1784

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

A O-SIALIC ACID
C11 H19 N O9
SQVRNKJHWKZAKO-YRMXFSIDSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
TRS
Query on TRS

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

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

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
SIA N/A in BindingDB
Kd: 30000 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Observed: 0.214
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 70.31 α = 90.00
b = 74.91 β = 90.00
c = 151.62 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-06-09
  • Released Date: 2004-07-08
  • Deposition author(s): Moustafa, I., Connaris, H., Taylor, M., Zaitsev, V., Wilson, J.C., Kiefel, M.J., von-Itzstein, M., Taylor, G.

Revision History

  • 2015-04-15
    Type: Non-polymer description | Details: FORMUL
  • 2015-04-15
    Type: Biological assembly | Details: REMARK 350
  • 2015-04-15
    Type: Citation | Details: JRNL
  • 2015-04-15
    Type: Other | Details: REMARK 525,REMARK 280
  • 2015-04-15
    Type: Version format compliance | Details: REMARK 4