4B14

Plasmodium vivax N-myristoyltransferase with a bound benzofuran inhibitor (compound 26)

Structural Biology Knowledgebase: 4B14 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.302
  • R-Value Work: 0.252

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4B14

Classification: TRANSFERASE

Total Structure Weight: 139906.15

Macromolecule Entities
Molecule Chains Length Organism Details
GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE A, B, C 385 Plasmodium vivax EC#: 2.3.1.97 IUBMB
Fragment: RESIDUES 27-410
Gene Name(s): PVX_085815

Small Molecules
Ligands 6 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
4XB
Query on 4XB

A, B, C 3-methoxybenzyl 3-methyl-4-(piperidin-4-yloxy)- 1-benzofuran-2-carboxylate
C23 H25 N O5
MODWRRKHFAUNLX-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
CL
Query on CL

A, B, C CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
JSmol
DMS
Query on DMS

A, B, C DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
MG
Query on MG

A, B, C MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
NHW
Query on NHW

A, B, C 2-oxopentadecyl-CoA
C36 H64 N7 O17 P3 S
JKWHUJMJVNMKEF-UOCZADIYSA-J
Ligand Explorer
 
JSmol
SO4
Query on SO4

B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
4XB N/A in BindingDB
IC50: 600 nM  BindingMOAD
IC50: 600 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.302
  • R-Value Work: 0.252
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 57.38 α = 90.00
b = 118.96 β = 90.00
c = 179.13 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-07-06
  • Released Date: 2012-10-17
  • Deposition author(s): Yu, Z., Brannigan, J.A., Moss, D.K., Brzozowski, A.M., Wilkinson, A.J., Holder, A.A., Tate, E.W., Leatherbarrow, R.J.

Revision History

  • 2012-11-07
    Type: Citation | Details: JRNL