1FV3

THE HC FRAGMENT OF TETANUS TOXIN COMPLEXED WITH AN ANALOGUE OF ITS GANGLIOSIDE RECEPTOR GT1B

Structural Biology Knowledgebase: 1FV3 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.306
  • R-Value Work: 0.237

Literature

Macromolecules
Sequence Display for 1FV3

Classification: TOXIN

Total Structure Weight: 111459.16

Macromolecule Entities
Molecule Chains Length Organism Details
TETANUS TOXIN HEAVY CHAIN A, B 472 Clostridium tetani EC#: 3.4.24.68 IUBMB
Fragment: C-TERMINAL DOMAIN OF HEAVY CHAIN
Gene Name(s): tetX CTC_p60
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 7 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SLB
Query on SLB

A, B 5-N-ACETYL-BETA-D-NEURAMINIC ACID
BETA-SIALIC ACID (Synonym)
C11 H19 N O9
SQVRNKJHWKZAKO-PFQGKNLYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SIA
Query on SIA

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

A, B N-ACETYL-D-GALACTOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-JAJWTYFOSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GAL
Query on GAL

A, B BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BGC
Query on BGC

A, B BETA-D-GLUCOSE
C6 H12 O6
WQZGKKKJIJFFOK-VFUOTHLCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CEQ
Query on CEQ

A, B ETHYL-TRIMETHYL-SILANE
C5 H14 Si
UKAJDOBPPOAZSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

B PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.306
  • R-Value Work: 0.237
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 91.31 α = 90.00
b = 53.07 β = 89.78
c = 118.28 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-09-18
  • Released Date: 2001-09-05
  • Deposition author(s): Fotinou, C., Emsley, P., Black, I., Ando, H., Ishida, H., Kiso, M., Sinha, K.A., Fairweather, N.F., Isaacs, N.W.

Revision History

  • 2016-06-08
    Type: Sequence database correspondence | Details: Retrieve sequence details
  • 2011-07-13
    Type: Refinement description | Details: Fixed TLS group
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor