4A01

Crystal Structure of the H-Translocating Pyrophosphatase

Structural Biology Knowledgebase: 4A01 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.203
  • R-Value Work: 0.168

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4A01

Classification: HYDROLASE

Total Structure Weight: 165205.39

Macromolecule Entities
Molecule Chains Length Organism Details
PROTON PYROPHOSPHATASE A, B 766 Vigna radiata EC#: 3.6.1.1 IUBMB
Mutation: L476F
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: ALPHA-HELICAL

Subgroup Name: Membrane-Integral Pyrophosphatases (M-PPases)

Protein Name: H+-translocating M-PPase


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

A, B DECYL-BETA-D-MALTOPYRANOSIDE
DECYLMALTOSIDE (Synonym)
C22 H42 O11
WOQQAWHSKSSAGF-WXFJLFHKSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
2PN
Query on 2PN

A, B IMIDODIPHOSPHORIC ACID
H5 N O6 P2
GNGSOPFGGKKDQP-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

A, B POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.203
  • R-Value Work: 0.168
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 218.62 α = 90.00
b = 88.24 β = 125.53
c = 159.10 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-09-07
  • Released Date: 2012-03-28
  • Deposition author(s): Lin, S.-M., Tsai, J.-Y., Hsiao, C.-D., Chiu, C.-L., Pan, R.-L., Sun, Y.-J.

Revision History

  • 2012-04-25
    Type: Other | Details: Citation