Critical Assessment of Fully Automated Structure Prediction


CAFASP2 summaries

The following are summaries compiled from the results of the individual fold-recognition servers. All information presented here was extracted from the raw-results stored at the CAFASP meta server at http://cafasp.bioinfo.pl/.

For each target we compiled the top five folds detected by each server. For each fold, the SCOP hierarchical code is given (when not available, the pdb name is given instead), along with the score assigned by each server. Along each server's name, the suggested confidence threshold for the server is listed.

WARNING

These summaries were manually compiled by Amir Mishalia mishalia@cs.bgu.ac.il and Nir Esterman esterman@cs.bgu.ac.il . The scores, pdb names and the SCOP codes listed may contain errors. Despite efforts to obtain the most accurate information in these summaries, errors may appear and we assume no responsibility regarding the contents listed. However, if you find errors or typos in the below information, please e-mail Nir, Amir and/or Dani Fischer dfischer@cs.bgu.ac.il and we would be more than happy to correct them.

We have also compiled for each server the suggested confidence thresholds which are listed in the summaries below.

Summaries currently available:

Target Number of servers with valid raw-output stored at the CAFASP-2 metaserver CAFASP-2 formatted submission deadline Consensus prediction (strength) Comments/Notes/Etc
T0100
24
7.3
1dbgA by mGENTHREADER (27 hits **) CORRECT PDB: 1QJV
T0086
15
7.20
NONE?
(max: 5 hits)
T0093
23
7.22
1qorA by 3DPSSM
(12 hits)
Reported as HM but not found by psi-blast
T0106
30
7.25
? (max: 10 hits
for 2 folds)
T0094
25
8.1
1ygha by PDBBLAST
(13 hits)
T0114
31
8.4
? ( 28 hits for 2.1)
T0098
24
8.15
? (max: 8 hits) PDB: 1FC3
T0107
29
8.29
2ltn by BIOINBGU?
(10 hits)
T0102
24
8.30
NONE?
(max: 8 hits)
Cyclic peptide PDB: 1E68
T0097
24
8.31
? (max: 13 hits)
T0105
31
8.31
(15 hits *)
T0116
29
8.31
2reb by SAMT99
(21 hits **) CORRECT
2reb hit in C-terminus
Reported as HM but not found by psi-blast PDB: 1EWQ
T0108
29
9.1
(36 hits for 2.1)
T0109
29
9.1
1d9fA by FFAS
(19 hits **) CORRECT
T0087
19
9.7
(24 hits **)
T0088
19
9.7
1xyn by BIOINBGU
(14 hits *)
T0091
23
9.8
? (max: 11 hits
for 2 folds)
T0095
25
9.8
14psa by BIOINBGU
(23 hits **)
T0096
24
9.8
N-ter: HM, 1lea by SAMT98
(25 hits **)
C-ter: NONE? (max: 10 hits) CORRECT
2-domain; 1 new, 1 known
T0096.2
24
9.8
NONE?
(max: 10 hits)
2nd-domain reported as new
T0101
24
9.11
1dbgA by FFAS
(30 hits ***) CORRECT
T0104
26
9.11
5p21 by SAMT99
(37 hits ***)
1hgxB by FFAS
(22 hits **)
CORRECT
T0110
30
9.12
NONE?
(max: 6 hits)
T0115
29
9.12
(16 and 13 hits *) ADP complex; known folds
T0118
30
9.13
NONE?
(max: 6 hits)
T0120
30
9.14
T0121
31
9.14
N-ter: HM, 1bou
C-ter: FR (max: 11 hits)
2-domain; 1 new, 1 known
T1212
31
9.14
? (max: 11 hits) 1ah9 by inbgu. CORRECT C-domain.
T0124
31
9.15
? (max: 17 hits)
T0126
32
9.15
NONE?
(max: 6 hits)
T0127
31
9.15
1a5t or 1do0 by many
(58 hits ***) CORRECT
PSI-BLAST finds strong hit

The consensus prediction is given by the most frequent fold appearing within the top 5 hits of all servers. The consensus prediction is selected from one of the servers that scored the fold the strongest. In parenthesis is shown the number of times the selected fold appeared, and the strength of the prediction is given by the number of *'s.