4IFZ

Crystal structure of Treponema pallidum TP0796 Flavin trafficking protein, Mn(II)-AMP product bound form

Structural Biology Knowledgebase: 4IFZ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.203
  • R-Value Work: 0.159

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4IFZ

Classification: HYDROLASE

Total Structure Weight: 37169.82

Macromolecule Entities
Molecule Chains Length Organism Details
Thiamine biosynthesis lipoprotein ApbE A 340 Treponema pallidum EC#: 2.7.1.180 IUBMB
Gene Name(s): apbE TP_0796

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

A ADENOSINE MONOPHOSPHATE
C10 H14 N5 O7 P
UDMBCSSLTHHNCD-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.203
  • R-Value Work: 0.159
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 116.63 α = 90.00
b = 46.91 β = 102.17
c = 57.63 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-12-15
  • Released Date: 2013-02-27
  • Deposition author(s): Tomchick, D.R., Brautigam, C.A., Deka, R.K., Norgard, M.V.

Revision History

  • 2013-05-08
    Type: Citation | Details: Citation update
  • 2013-03-13
    Type: Citation | Details: Citation update
  • 2013-03-06
    Type: Entry title | Details: Update title