Find PDB structures and Computed Structure Models (CSM) by combining queries from tools in this suite: Attribute Search, Sequence Similarity, Sequence Motif, 3D Similarity, and 3D Motif with 'AND' logic.
The map resolution was further improved up to 3.47 with local refinement of the individual protein domains.
Refinement Type
Symmetry Type
POINT
Map-Model Fitting and Refinement
Id
1
2
3
Refinement Space
REAL
REAL
REAL
Refinement Protocol
FLEXIBLE FIT
FLEXIBLE FIT
FLEXIBLE FIT
Refinement Target
Ramachandran Plot, Rotamer Analysis, Density Analysis
Correlation coefficient
Ramachandran Plot, Rotamer Analysis, Clash Score
Overall B Value
87.8
87.8
87.8
Fitting Procedure
Details
Endoribonuclease mouse Dicer from AlphaFold database was used as initial model. Initial local fitting into combined map from locally refined protein p ...
Endoribonuclease mouse Dicer from AlphaFold database was used as initial model. Initial local fitting into combined map from locally refined protein parts was done using Chimera and then Coot's Real Space Refine Zone.
PHENIX Real-space refinement was used for flexible fitting.
ISOLDE was used for flexible fitting with defined torsion restraints