In the table below you can see the SeRenDIP PPI interface prediction example P0DTC6 — Name: SARS-CoV-2 Non-structural protein 6 — UniProtKB: NS6_SARS2
. The table
contains sequence position, prediction scores and classification based on the default cut-off of 0.5 (above is predicted interaction).
Qingzhen Hou1, Reza Haydarlou, Bas Stringer, Katharina Waury, Henriette Capel, Sanne Abeln, Jaap Heringa, K. Anton Feenstra
SeRenDIP-CE: Sequence-based Interface Prediction for Conformational Epitopes
Bioinformatics advance 11 May 2021, doi: 10.1093/bioinformatics/btab3211Department of Biostatistics, School of Public Health &
National institute of health data science of China; Shandong 250002, P. R. China
Qingzhen Hou1, Paul De Geest, Christian Griffioen, Sanne Abeln,
Jaap Heringa, K. Anton Feenstra.
SeRenDIP: remastered alignment profiles for fast
and accurate predictions of PPI interface positions.Bioinformatics 35, pp 4794–4796, 2019, doi: 10.1093/bioinformatics/btz428 13BIO-BioInfo – BioModeling, BioInformatics & BioProcesses, Université Libre de Bruxelles
Qingzhen Hou, Paul De Geest, Wim F. Vranken, Jaap Heringa and K. Anton Feenstra Seeing the Trees through the Forest:
Sequence-based Homo- and Heteromeric
Protein-protein Interaction sites prediction using
Random Forest. Bioinformatics, 2017, doi: 10.1093/bioinformatics/btx005
Color better than threshold:
Sequence
Combined Prediction
Pos
AA
Model
Pred
x of 53 rows match filter(s)
5
V
0.508
I
6
D
0.582
I
7
F
0.612
I
8
Q
0.598
I
9
V
0.612
I
10
T
0.622
I
11
I
0.562
I
12
A
0.498
NI
13
E
0.542
I
14
I
0.516
I
15
L
0.502
I
16
L
0.526
I
17
I
0.500
NI
18
I
0.546
I
19
M
0.474
NI
20
R
0.512
I
21
T
0.526
I
22
F
0.506
I
23
K
0.466
NI
24
V
0.526
I
25
S
0.496
NI
26
I
0.498
NI
27
W
0.492
NI
28
N
0.494
NI
29
L
0.492
NI
30
D
0.508
I
31
Y
0.530
I
32
I
0.496
NI
33
I
0.514
I
34
N
0.520
I
35
L
0.494
NI
36
I
0.530
I
37
I
0.544
I
38
K
0.572
I
39
N
0.612
I
40
L
0.602
I
41
S
0.554
I
42
K
0.574
I
43
S
0.564
I
44
L
0.562
I
45
T
0.520
I
46
E
0.512
I
47
N
0.504
I
48
K
0.566
I
49
Y
0.538
I
50
S
0.488
NI
51
Q
0.564
I
52
L
0.540
I
53
D
0.526
I
54
E
0.522
I
55
E
0.550
I
56
Q
0.526
I
57
P
0.544
I
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