4BRK

Legionella pneumophila NTPDase1 N302Y variant crystal form III (closed) in complex with MG UMPPNP

Structural Biology Knowledgebase: 4BRK SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.178
  • R-Value Work: 0.129

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4BRK

Classification: HYDROLASE

Total Structure Weight: 85556.14

Macromolecule Entities
Molecule Chains Length Organism Details
ECTONUCLEOSIDE TRIPHOSPHATE DIPHOSPHOHYDROLASE I A, B 368 Legionella pneumophila EC#: 3.6.1.5 IUBMB
Fragment: RESIDUES 35-393
Mutation: E137D, A149V, N302Y

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CL
Query on CL

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

A, B GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
MES
Query on MES

A, B 2-(N-MORPHOLINO)-ETHANESULFONIC ACID
C6 H13 N O4 S
SXGZJKUKBWWHRA-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
MG
Query on MG

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

A, B 5'-O-[(R)-hydroxy{[(S)-hydroxy(phosphonoamino)phosphoryl]oxy}phosphoryl]uridine
C9 H16 N3 O14 P3
MCBVWUSULWKVON-XVFCMESISA-N
Ligand Explorer
 
JSmol

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.178
  • R-Value Work: 0.129
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 80.60 α = 90.00
b = 82.97 β = 90.00
c = 109.58 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-06-04
  • Released Date: 2013-07-17
  • Deposition author(s): Zebisch, M., Schaefer, P., Lauble, P., Straeter, N.

Revision History

  • 2013-12-25
    Type: Function and keywords | Details: KEYWDS
  • 2013-08-28
    Type: Citation | Details: JRNL