In the table below you can see the SeRenDIP PPI interface prediction example P0DTC4 — Name: SARS-CoV-2 Envelope small membrane protein — UniProtKB: VEMP_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 67 rows match filter(s)
5
V
0.540
I
6
S
0.580
I
7
E
0.562
I
8
E
0.576
I
9
T
0.572
I
10
G
0.614
I
11
T
0.568
I
12
L
0.606
I
13
I
0.636
I
14
V
0.636
I
15
N
0.596
I
16
S
0.516
I
17
V
0.512
I
18
L
0.450
NI
19
L
0.434
NI
20
F
0.424
NI
21
L
0.414
NI
22
A
0.452
NI
23
F
0.450
NI
24
V
0.426
NI
25
V
0.450
NI
26
F
0.452
NI
27
L
0.424
NI
28
L
0.454
NI
29
V
0.438
NI
30
T
0.466
NI
31
L
0.452
NI
32
A
0.452
NI
33
I
0.444
NI
34
L
0.482
NI
35
T
0.494
NI
36
A
0.484
NI
37
L
0.468
NI
38
R
0.512
I
39
L
0.498
NI
40
C
0.494
NI
41
A
0.516
I
42
Y
0.492
NI
43
C
0.450
NI
44
C
0.512
I
45
N
0.544
I
46
I
0.504
I
47
V
0.584
I
48
N
0.556
I
49
V
0.578
I
50
S
0.574
I
51
L
0.648
I
52
V
0.604
I
53
K
0.602
I
54
P
0.594
I
55
S
0.528
I
56
F
0.548
I
57
Y
0.562
I
58
V
0.548
I
59
Y
0.568
I
60
S
0.546
I
61
R
0.588
I
62
V
0.554
I
63
K
0.598
I
64
N
0.544
I
65
L
0.518
I
66
N
0.524
I
67
S
0.480
NI
68
S
0.494
NI
69
R
0.554
I
70
V
0.546
I
71
P
0.520
I
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