Fig. 3: Performance on partial map search.
From: VESPER: global and local cryo-EM map alignment using local density vectors
a The number of map groups with different fractions of member maps with a correct top hit. VESPER with the DOT score (blue) and CC (orange). b The average fraction of correct hits within the first tier for the 129 groups. The x-axis, VESPER with the DOT score; the y-axis, CC. The area of a point is proportional to the number of groups at that data point. c Comparison of VESPER (DOT) and CC on partial map retrieval at different resolutions. The resolution of the query map was considered. The average fraction of correct hits within the first tier was considered. d Comparison between VESPER and gmfit on the average fraction of correct hits in partial map search within the first tier for each map group. e Comparison between VESPER and fitmap on the first tier hit fraction in partial map search. f The average first tier hit fraction for maps in each resolution bin for VESPER (DOT) (blue), CC (orange), gmfit (green), fitmap (red), and EM-SURFER (3DZD; purple). The resolution of the query map was considered on the x-axis. g The Vo domain of V-ATPase (left, EMD-8409, res.: 3.9 Å) matched to the complete V-ATPase (middle, EMD-8726, res.: 7.6 Å). Colored dots in the right panel shows the dot product of matched vectors, with blue being a positive score and red for zero or a negative score. For this query, the first tier success rates of VESPER (DOT)/CC/gmfit/fitmap were 0.57/0.36/0.36/0.21, respectively. The ranks of this hit (EMD-8726) from the query by VESPER (DOT)/CC/gmfit/fitmap were 3/524/66/67 and the RMSD values of the match computed with the underlying protein subunit were 6.05/132.45/140.23/2.27 Å, respectively. h proteasome regulatory particle (left, EMD-8675, res.: 6.1 Å) matched to 26S proteasome (middle, EMD-3537, res.: 7.7 Å). The first tier success rates of VESPER (DOT)/CC/gmfit/fitmap were 0.89/0.32/0.37/0.11, respectively. The ranks of this hit (EMD-8726) from the query by VESPER (DOT)/CC/gmfit/fitmap were 1/507/184/473 and the RMSD values of the match computed with the underlying protein subunit were 11.32/111.40/138.33/131.44 Å, respectively.
