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2g2f redone
A Src-like Inactive Conformation in the Abl Tyrosine Kinase Domain

This information was created with PDB-REDO version 7.36. Please log in to request an update.

Crystallographic data
From PDB header
Spacegroup P 21 21 2 a: 105.669 Å b: 133.322 Å c: 56.576 Å α: 90.00° β: 90.00° γ: 90.00°
Resolution 2.70 Å Reflections 27408 Test set 1376 (5.0%)
R 0.2320 R-free 0.2860
According to PDB-REDO
Resolution 2.51 Å Reflections 27408 Test set 1376 (5.0%) Twin false
PDB-REDO files
Re-refined and rebuilt structure
( PDB | mmCIF | MTZ)
Re-refined (only) structure
( PDB | MTZ)
All files
(compressed)
Links
PDBe RCSB PDB 3D bionotes Proteopedia
Validation metrics from PDB-REDO
PDB PDB-REDO
Crystallographic refinement
R 0.2933 0.2064
R-free 0.3381 0.2596
Bond length RMS Z-score 0.344 0.471
Bond angle RMS Z-score 0.629 0.712
Model quality (raw scores | percentiles)
Ramachandran plot appearance -4.028 9 -1.571 38
Rotamer normality -3.655 30 -2.548 48
Coarse packing -1.321 9 -0.842 21
Fine packing -0.657 66 0.057 83
Bump severity 0.023 36 0.007 67
Hydrogen bond satisfaction 0.871 22 0.913 68
WHAT_CHECK Report Report

Kleywegt-like plot

Model quality compared to resolution neighbours
Significant model changes
Description Count
Rotamers changed 8
Side chains flipped 6
Waters removed 9
Peptides flipped 1
Chiralities fixed 0
Residues fitting density better 17
Residues fitting density worse 0
Change in density map fit (RSCC)