In the table below you can see the SeRenDIP PPI interface prediction example P0DTD3 — Name: SARS-CoV-2 Uncharacterized protein 14 — UniProtKB: Y14_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 65 rows match filter(s)
5
C
0.490
NI
6
Y
0.508
I
7
N
0.560
I
8
F
0.568
I
9
L
0.494
NI
10
K
0.484
NI
11
E
0.552
I
12
Q
0.506
I
13
H
0.580
I
14
C
0.504
I
15
Q
0.480
NI
16
K
0.538
I
17
A
0.558
I
18
S
0.522
I
19
T
0.494
NI
20
Q
0.494
NI
21
K
0.532
I
22
G
0.504
I
23
A
0.440
NI
24
E
0.474
NI
25
A
0.472
NI
26
A
0.530
I
27
V
0.494
NI
28
K
0.490
NI
29
P
0.498
NI
30
L
0.470
NI
31
L
0.502
I
32
V
0.516
I
33
P
0.516
I
34
H
0.514
I
35
H
0.530
I
36
V
0.490
NI
37
V
0.552
I
38
A
0.548
I
39
T
0.544
I
40
V
0.472
NI
41
Q
0.544
I
42
E
0.472
NI
43
I
0.486
NI
44
Q
0.468
NI
45
L
0.516
I
46
Q
0.504
I
47
A
0.514
I
48
A
0.556
I
49
V
0.492
NI
50
G
0.458
NI
51
E
0.534
I
52
L
0.546
I
53
L
0.498
NI
54
L
0.516
I
55
L
0.476
NI
56
E
0.472
NI
57
W
0.448
NI
58
L
0.428
NI
59
A
0.510
I
60
M
0.486
NI
61
A
0.510
I
62
V
0.552
I
63
M
0.534
I
64
L
0.532
I
65
L
0.520
I
66
L
0.472
NI
67
L
0.498
NI
68
C
0.490
NI
69
C
0.514
I
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