3MK3

Crystal structure of Lumazine synthase from Salmonella typhimurium LT2

Structural Biology Knowledgebase: 3MK3 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.57 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.226

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3MK3

Classification: TRANSFERASE

Total Structure Weight: 968930.63

Macromolecule Entities
Molecule Chains Length Organism Details
6,7-dimethyl-8-ribityllumazine synthase 1, 2, 3..., 4, 5, 6, 7, 8, 9, A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d, e, f, g, h, i, j, k, l, m, n, o, p, q, r, s, t, u, v, w, x, y1, 2, 3, 4, 5, 6, 7, 8, 9, A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d, e, f, g, h, i, j, k, l, m, n, o, p, q, r, s, t, u, v, w, x, y 156 Salmonella enterica EC#: 2.5.1.78 IUBMB
Gene Name(s): ribH STM0417
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

1, 2, 3, 5, 6, 7, 8, 9, A, B, D, E, F, G, H, I, J, K, L, M, O, P, Q, R, T, U, V, W, X, Y, Z, a, b, d, e, f, g, h, i, k, l, m, n, o, p, q, s, u, v, x, y SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.57 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.226
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 154.23 α = 90.00
b = 151.50 β = 97.08
c = 235.03 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-04-14
  • Released Date: 2011-02-02
  • Deposition author(s): Kumar, P., Singh, M., Karthikeyan, S.

Revision History

  • 2013-01-23
    Type: Polymer description | Details: update ec number
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4