- PDB-5oc0: Structure of E. coli superoxide oxidase -
+
Open data
ID or keywords:
Loading...
-
Basic information
Entry
Database: PDB / ID: 5oc0
Title
Structure of E. coli superoxide oxidase
Components
Cytochrome b561
Keywords
OXIDOREDUCTASE / membrane protein / superoxide / electron transport / heme / respiratory chain / ROS / quinone / ubiquinone
Function / homology
Function and homology information
plasma membrane => GO:0005886 / removal of superoxide radicals / respiratory electron transport chain / electron transfer activity / heme binding / metal ion binding / plasma membrane Similarity search - Function
Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelength
Wavelength: 0.97973 Å / Relative weight: 1
Reflection
Resolution: 1.97→20 Å / Num. obs: 21862 / % possible obs: 99.7 % / Redundancy: 13 % / Rrim(I) all: 0.103 / Net I/σ(I): 14.38
Reflection shell
Resolution: 1.97→2.09 Å / Redundancy: 13.2 % / Mean I/σ(I) obs: 2 / Num. unique all: 3417 / Rrim(I) all: 1.212 / % possible all: 99.1
-
Processing
Software
Name
Version
Classification
REFMAC
5.8.0135
refinement
XDS
datareduction
XDS
datascaling
SHELXDE
phasing
Refinement
Method to determine structure: SAD / Resolution: 1.97→19.87 Å / Cor.coef. Fo:Fc: 0.955 / Cor.coef. Fo:Fc free: 0.944 / SU B: 5.665 / SU ML: 0.088 / Cross valid method: THROUGHOUT / ESU R: 0.124 / ESU R Free: 0.113 / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
Rfactor
Num. reflection
% reflection
Selection details
Rfree
0.20437
1093
5 %
RANDOM
Rwork
0.18758
-
-
-
obs
0.18845
20754
99.81 %
-
Solvent computation
Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å