1Q1G

Crystal structure of Plasmodium falciparum PNP with 5'-methylthio-immucillin-H

Structural Biology Knowledgebase: 1Q1G SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.02 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.211

Literature

Macromolecules
Sequence Display for 1Q1G

Classification: transferase

Total Structure Weight: 187451.67

Macromolecule Entities
Molecule Chains Length Organism Details
Uridine phosphorylase putative A, B, C..., D, E, FA, B, C, D, E, F 276 Plasmodium falciparum EC#: 2.4.2.1 IUBMB
Gene Name(s): PFE0660c
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D, E, F 3,4-DIHYDROXY-2-[(METHYLSULFANYL)METHYL]- 5-(4-OXO-4,5-DIHYDRO-3H-PYRROLO[3,2-D]PYRIMIDIN- 7-YL)PYRROLIDINIUM
MT-IMMH,,4-DIDEOXY- 1 (Synonym)
C12 H17 N4 O3 S
CEGIKIXYDFDYDN-RXDXJJGDSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B, C, D, E, F SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IPA
Query on IPA

A, B, D, E, F ISOPROPYL ALCOHOL
2-PROPANOL (Synonym)
C3 H8 O
KFZMGEQAYNKOFK-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
MTI N/A in BindingDB
Kd: 2.7 nM  BindingMOAD
Kd: 2.7 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.02 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.211
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 86.44 α = 90.00
b = 91.73 β = 90.00
c = 238.94 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-07-19
  • Released Date: 2004-03-16
  • Deposition author(s): Shi, W., Ting, L.M., Kicska, G.A., Lewandowicz, A., Tyler, P.C., Evans, G.B., Furneaux, R.H., Kim, K., Almo, S.C., Schramm, V.L.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Source and taxonomy | Details: Removed strain from scientific name