Cornifin - PFAM28P - GREMLIN Contacts

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Cornifin - Cornifin (SPRR) family

PFAM:	PF02389	Sequences: QQQQVKQPCQPPPQEPCVPKVKEPCTTKVPEPCTTKVPEPCTTKVPEPCLTKVPEPCTTKVPEPCTPKVPEPCLTKVPEPCTPKVPEPCTTKVPEPCLTKVPEPCTTKVPEPCTPKVPEPCPSTVTPGPAQQKTK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	135 (110)
Sequences:	639 (564)
Seq/√Len:	53.8
META:	0.471

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
52_K	68_K	2.043	1.00
63_E	79_E	2.026	1.00
58_T	74_L	2.021	1.00
36_K	52_K	1.948	1.00
60_K	76_K	1.946	1.00
50_L	82_T	1.816	0.99
42_T	74_L	1.776	0.99
66_T	82_T	1.747	0.99
45_V	61_V	1.739	0.99
53_V	69_V	1.730	0.99
42_T	58_T	1.668	0.99
44_K	60_K	1.664	0.99
44_K	76_K	1.634	0.98
43_T	59_T	1.632	0.98
50_L	66_T	1.616	0.98
68_K	84_K	1.565	0.98
59_T	75_T	1.553	0.98
82_T	98_L	1.536	0.98
60_K	92_K	1.492	0.97
36_K	84_K	1.475	0.97
34_T	66_T	1.472	0.97
67_P	99_T	1.467	0.97
98_L	114_T	1.442	0.97
34_T	50_L	1.406	0.96
47_E	79_E	1.400	0.96
94_P	110_P	1.391	0.96
68_K	100_K	1.369	0.95
90_T	106_T	1.346	0.95
51_T	67_P	1.330	0.95
30_P	62_P	1.319	0.94
37_V	53_V	1.311	0.94
67_P	83_P	1.302	0.94
52_K	84_K	1.302	0.94
62_P	78_P	1.290	0.94
47_E	63_E	1.268	0.93
61_V	77_V	1.247	0.92
34_T	82_T	1.226	0.92
54_P	102_P	1.223	0.92
44_K	68_K	1.214	0.91
58_T	106_T	1.211	0.91
38_P	54_P	1.211	0.91
77_V	93_V	1.188	0.90
28_K	60_K	1.158	0.89
40_P	56_P	1.141	0.89
43_T	67_P	1.140	0.88
34_T	98_L	1.138	0.88
50_L	98_L	1.126	0.88
35_T	51_T	1.119	0.88
58_T	90_T	1.118	0.87
28_K	44_K	1.118	0.87
52_K	100_K	1.107	0.87
57_C	73_C	1.102	0.87
44_K	92_K	1.099	0.87
71_E	87_E	1.099	0.87
43_T	75_T	1.090	0.86
40_P	88_P	1.076	0.85
74_L	90_T	1.071	0.85
42_T	66_T	1.070	0.85
28_K	76_K	1.069	0.85
77_V	109_V	1.067	0.85
76_K	108_K	1.057	0.84
55_E	79_E	1.053	0.84
35_T	83_P	1.052	0.84
26_T	42_T	1.050	0.84
78_P	94_P	1.041	0.83
33_C	49_C	1.036	0.83
56_P	72_P	1.035	0.83
56_P	88_P	1.033	0.83
93_V	109_V	1.019	0.82
95_E	111_E	1.016	0.82
84_K	100_K	1.015	0.82
51_T	83_P	1.003	0.81
39_E	55_E	0.993	0.80
76_K	92_K	0.990	0.80
40_P	72_P	0.985	0.80
66_T	114_T	0.985	0.80
55_E	71_E	0.980	0.80
63_E	95_E	0.972	0.79
39_E	71_E	0.971	0.79
85_V	101_V	0.967	0.79
57_C	105_C	0.964	0.78
62_P	94_P	0.956	0.78
53_V	85_V	0.955	0.78
26_T	74_L	0.950	0.77
49_C	65_C	0.949	0.77
92_K	108_K	0.932	0.76
46_P	62_P	0.930	0.76
54_P	70_P	0.924	0.75
47_E	95_E	0.917	0.75
48_P	80_P	0.915	0.75
75_T	107_T	0.889	0.73
30_P	46_P	0.884	0.72
83_P	99_T	0.882	0.72
38_P	70_P	0.877	0.72
43_T	91_T	0.873	0.71
41_C	57_C	0.868	0.71
78_P	110_P	0.865	0.70
64_P	96_P	0.860	0.70
35_T	67_P	0.855	0.70
71_E	103_E	0.849	0.69
79_E	95_E	0.846	0.69
42_T	90_T	0.843	0.68
36_K	68_K	0.839	0.68
41_C	73_C	0.826	0.67
66_T	98_L	0.821	0.66
61_V	93_V	0.819	0.66
29_V	61_V	0.813	0.66
67_P	115_P	0.801	0.65
51_T	75_T	0.799	0.64
82_T	114_T	0.781	0.63
75_T	91_T	0.779	0.62
26_T	58_T	0.776	0.62
49_C	73_C	0.771	0.62
52_K	76_K	0.770	0.61
59_T	91_T	0.768	0.61
65_C	81_C	0.767	0.61
67_P	91_T	0.760	0.60
49_C	97_C	0.751	0.59
41_C	89_C	0.751	0.59
64_P	80_P	0.748	0.59
42_T	82_T	0.743	0.59
97_C	113_C	0.733	0.58
69_V	85_V	0.732	0.58
74_L	106_T	0.731	0.57
70_P	86_P	0.729	0.57
69_V	101_V	0.712	0.55
29_V	45_V	0.708	0.55
55_E	87_E	0.691	0.53
57_C	89_C	0.689	0.53
50_L	74_L	0.687	0.53
59_T	107_T	0.677	0.52
66_T	90_T	0.668	0.51
100_K	116_K	0.666	0.51
70_P	118_P	0.666	0.51
38_P	86_P	0.665	0.50
56_P	104_P	0.654	0.49
46_P	78_P	0.650	0.49
32_P	48_P	0.642	0.48
80_P	96_P	0.638	0.48
53_V	101_V	0.620	0.46
37_V	69_V	0.617	0.45
72_P	88_P	0.600	0.44
36_K	44_K	0.595	0.43
100_K	108_K	0.583	0.42
74_L	98_L	0.582	0.42
39_E	87_E	0.580	0.42
34_T	58_T	0.577	0.41
81_C	97_C	0.571	0.41
30_P	78_P	0.567	0.40
48_P	96_P	0.547	0.38
54_P	86_P	0.547	0.38
46_P	70_P	0.547	0.38
39_E	63_E	0.541	0.38
47_E	71_E	0.537	0.37
81_C	113_C	0.524	0.36
49_C	81_C	0.523	0.36
33_C	81_C	0.520	0.35
62_P	110_P	0.520	0.35
89_C	105_C	0.518	0.35
65_C	97_C	0.516	0.35
88_P	104_P	0.516	0.35
58_T	82_T	0.512	0.35
31_E	63_E	0.508	0.34
91_T	99_T	0.501	0.34
33_C	65_C	0.500	0.34

Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

HHsearch Results:

Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.

PDB	Chains	Cov	%	HHΔ
3ob4A	2	0.4148	0.4	0.951	Contact Map
4po6A	1	0.1778	0.4	0.952	Contact Map
3cqxC	2	0.3704	0.4	0.952	Contact Map
2lboA	1	0.3407	0.3	0.956	Contact Map
3swyA	3	0.1185	0.3	0.957	Contact Map
4kiyR	1	0.1778	0.3	0.958	Contact Map
3iylX	8	0.2741	0.3	0.959	Contact Map
4jnuA	4	0.163	0.2	0.959	Contact Map
4cvdA	1	0.1185	0.2	0.96	Contact Map
3v65B	1	0.3333	0.2	0.96	Contact Map

Sequence Conservation (Image Generated using WebLogo v3)

Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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