In the table below you can see the SeRenDIP PPI interface prediction example P0DTD2 — Name: SARS-CoV-2 Protein 9b — UniProtKB: ORF9B_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 89 rows match filter(s)
5
I
0.576
I
6
S
0.546
I
7
E
0.618
I
8
M
0.572
I
9
H
0.634
I
10
P
0.554
I
11
A
0.614
I
12
L
0.506
I
13
R
0.594
I
14
L
0.566
I
15
V
0.516
I
16
D
0.528
I
17
P
0.490
NI
18
Q
0.548
I
19
I
0.442
NI
20
Q
0.556
I
21
L
0.534
I
22
A
0.542
I
23
V
0.556
I
24
T
0.578
I
25
R
0.598
I
26
M
0.580
I
27
E
0.510
I
28
N
0.562
I
29
A
0.524
I
30
V
0.508
I
31
G
0.484
NI
32
R
0.524
I
33
D
0.530
I
34
Q
0.490
NI
35
N
0.500
NI
36
N
0.458
NI
37
V
0.478
NI
38
G
0.512
I
39
P
0.506
I
40
K
0.470
NI
41
V
0.448
NI
42
Y
0.496
NI
43
P
0.500
NI
44
I
0.530
I
45
I
0.480
NI
46
L
0.508
I
47
R
0.544
I
48
L
0.562
I
49
G
0.564
I
50
S
0.562
I
51
P
0.524
I
52
L
0.474
NI
53
S
0.474
NI
54
L
0.442
NI
55
N
0.530
I
56
M
0.584
I
57
A
0.504
I
58
R
0.444
NI
59
K
0.552
I
60
T
0.592
I
61
L
0.526
I
62
N
0.438
NI
63
S
0.488
NI
64
L
0.490
NI
65
E
0.454
NI
66
D
0.456
NI
67
K
0.504
I
68
A
0.550
I
69
F
0.486
NI
70
Q
0.498
NI
71
L
0.490
NI
72
T
0.508
I
73
P
0.590
I
74
I
0.544
I
75
A
0.568
I
76
V
0.478
NI
77
Q
0.534
I
78
M
0.568
I
79
T
0.522
I
80
K
0.548
I
81
L
0.518
I
82
A
0.532
I
83
T
0.618
I
84
T
0.562
I
85
E
0.538
I
86
E
0.598
I
87
L
0.532
I
88
P
0.500
NI
89
D
0.502
I
90
E
0.506
I
91
F
0.528
I
92
V
0.516
I
93
V
0.476
NI
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