1Z69

Crystal structure of methylenetetrahydromethanopterin reductase (Mer) in complex with coenzyme F420

Structural Biology Knowledgebase: 1Z69 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.61 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.185

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1Z69

Classification: OXIDOREDUCTASE

Total Structure Weight: 141426.47

Macromolecule Entities
Molecule Chains Length Organism Details
Coenzyme F420-dependent N(5),N(10)-methylenetetrahydromethanopterin reductase A, B, C, D 327 Methanosarcina barkeri EC#: 1.5.98.2 IUBMB
Gene Name(s): mer Mbar_A0254
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
F42
Query on F42

A, B, C, D COENZYME F420
C29 H36 N5 O18 P
GEHSZWRGPHDXJO-NALJQGANSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
1PG
Query on 1PG

D 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}- ETHOXY)-ETHANOL
C11 H24 O6
SLNYBUIEAMRFSZ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

B, D CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.61 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.185
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 81.81 α = 90.00
b = 83.41 β = 91.15
c = 99.17 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-03-22
  • Released Date: 2005-06-21
  • Deposition author(s): Aufhammer, S.W., Warkentin, E., Ermler, U., Hagemeier, C.H., Thauer, R.K., Shima, S.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4