1YEW

Crystal structure of particulate methane monooxygenase

Structural Biology Knowledgebase: 1YEW SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.302
  • R-Value Work: 0.272

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1YEW

Classification: OXIDOREDUCTASE MEMBRANE PROTEIN

Total Structure Weight: 314574.31

Macromolecule Entities
Molecule Chains Length Organism Details
particulate methane monooxygenase, B subunit A, E, I 382 Methylococcus capsulatus EC#: 1.14.18.3 IUBMB
Gene Name(s): pmoB1 pmoB MCA1796 pmoB2 MCA2853
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
particulate methane monooxygenase, A subunit B, F, J 247 Methylococcus capsulatus EC#: 1.14.18.3 IUBMB
Gene Name(s): pmoA1 pmoA MCA1797 pmoA2 MCA2854
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
particulate methane monooxygenase subunit C2 C, G, K 289 Methylococcus capsulatus Gene Name(s): pmoC2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: ALPHA-HELICAL

Subgroup Name: Oxygenases

Protein Name: Particulate methane monooxgenase (pMMO)


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

A, E, I DINUCLEAR COPPER ION
Cu2
ALKZAGKDWUSJED-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, C, E, G, K ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CU
Query on CU

A, E, I COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.302
  • R-Value Work: 0.272
  • Space Group: P 42 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 264.14 α = 90.00
b = 264.14 β = 90.00
c = 150.01 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-12-28
  • Released Date: 2005-02-08
  • Deposition author(s): Lieberman, R.L., Rosenzweig, A.C.

Revision History

  • 2011-07-13
    Type: Source and taxonomy | Details: Removed strain from scientific name
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor