COTP - BACSU - GREMLIN Contacts

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COTP - Spore coat protein P

UniProt:	P96698	Sequences: MDFEKIRKWLEITNEYKQSDFWTNVLKYKAPEHFFDSEASTFVYDFYQDEEYNFIIVEMPGVYEEELTIRLLSKTQLLIKGTITPVFPAEMEVLRERYYGEIERIIQLPEAAETHLLQIQLLNGLLHISYPRQVETVAFNKGL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	143 (120)
Sequences:	4898 (3953)
Seq/√Len:	360.8

BACSU - COTP YOCM
HALSA - Q9HP50 Q9HSS6 Q9HHW1
SULSO - Q97VL9 Q97W19

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
113_E	116_L	4.055	1.00
52_Y	129_S	3.066	1.00
57_V	79_I	2.848	1.00
49_D	52_Y	2.694	1.00
44_Y	106_I	2.571	1.00
63_Y	123_N	2.441	1.00
48_Q	132_R	2.374	1.00
80_K	103_E	2.128	1.00
44_Y	57_V	2.100	1.00
58_E	125_L	2.054	1.00
82_T	101_E	2.036	1.00
56_I	127_H	2.019	1.00
49_D	54_F	1.986	1.00
63_Y	66_E	1.952	1.00
112_A	130_Y	1.945	1.00
67_L	121_L	1.920	1.00
54_F	127_H	1.844	1.00
68_T	80_K	1.819	1.00
45_D	97_R	1.743	1.00
92_E	95_R	1.742	1.00
47_Y	54_F	1.729	1.00
81_G	102_I	1.712	1.00
76_Q	105_I	1.664	1.00
113_E	133_Q	1.618	1.00
71_L	108_L	1.614	1.00
59_M	121_L	1.588	1.00
59_M	67_L	1.587	1.00
58_E	97_R	1.577	1.00
62_V	81_G	1.558	1.00
76_Q	107_Q	1.550	1.00
134_V	137_V	1.537	1.00
78_L	105_I	1.532	1.00
96_E	104_R	1.485	1.00
21_F	24_N	1.456	1.00
24_N	27_K	1.437	1.00
80_K	101_E	1.413	1.00
47_Y	56_I	1.373	1.00
42_F	102_I	1.357	1.00
116_L	131_P	1.313	1.00
45_D	56_I	1.257	1.00
63_Y	122_L	1.248	1.00
70_R	73_S	1.209	1.00
64_E	123_N	1.196	1.00
66_E	84_T	1.192	1.00
120_Q	127_H	1.188	1.00
21_F	25_V	1.153	1.00
45_D	95_R	1.152	1.00
55_I	130_Y	1.134	1.00
77_L	117_L	1.120	1.00
69_I	128_I	1.070	1.00
66_E	83_I	1.064	1.00
71_L	117_L	1.064	1.00
58_E	83_I	1.030	1.00
27_K	30_A	1.020	1.00
75_T	114_T	1.016	1.00
20_D	24_N	1.012	1.00
69_I	119_I	1.007	1.00
122_L	127_H	1.006	1.00
85_P	98_Y	1.003	1.00
47_Y	90_E	1.000	1.00
64_E	68_T	0.971	1.00
54_F	129_S	0.953	1.00
22_W	26_L	0.946	1.00
47_Y	92_E	0.945	1.00
120_Q	129_S	0.942	1.00
45_D	58_E	0.938	1.00
55_I	106_I	0.936	1.00
28_Y	31_P	0.917	1.00
68_T	140_N	0.916	1.00
70_R	78_L	0.914	1.00
85_P	95_R	0.911	1.00
77_L	128_I	0.910	1.00
46_F	53_N	0.908	1.00
56_I	125_L	0.907	1.00
67_L	97_R	0.904	1.00
81_G	100_G	0.886	1.00
53_N	93_V	0.884	1.00
24_N	28_Y	0.880	1.00
51_E	137_V	0.878	1.00
59_M	62_V	0.870	1.00
108_L	130_Y	0.868	1.00
42_F	57_V	0.855	1.00
42_F	59_M	0.850	1.00
53_N	111_A	0.841	1.00
29_K	33_H	0.835	1.00
42_F	81_G	0.825	1.00
111_A	133_Q	0.822	1.00
30_A	33_H	0.815	1.00
44_Y	79_I	0.815	1.00
71_L	114_T	0.800	1.00
53_N	110_E	0.795	1.00
45_D	99_Y	0.794	1.00
53_N	117_L	0.792	1.00
59_M	81_G	0.790	1.00
45_D	59_M	0.789	1.00
56_I	86_V	0.781	1.00
109_P	112_A	0.775	1.00
62_V	67_L	0.771	1.00
22_W	25_V	0.770	1.00
53_N	132_R	0.766	1.00
78_L	103_E	0.760	1.00
29_K	32_E	0.754	1.00
23_T	26_L	0.749	1.00
46_F	55_I	0.746	1.00
93_V	109_P	0.730	1.00
31_P	34_F	0.718	0.99
27_K	31_P	0.717	0.99
40_S	81_G	0.713	0.99
84_T	99_Y	0.710	0.99
83_I	100_G	0.707	0.99
48_Q	93_V	0.702	0.99
111_A	132_R	0.698	0.99
23_T	29_K	0.692	0.99
43_V	58_E	0.683	0.99
82_T	99_Y	0.683	0.99
118_Q	129_S	0.680	0.99
20_D	23_T	0.677	0.99
47_Y	53_N	0.676	0.99
110_E	133_Q	0.667	0.99
114_T	131_P	0.658	0.99
75_T	110_E	0.652	0.99
83_I	99_Y	0.651	0.99
89_A	94_L	0.647	0.99
25_V	29_K	0.641	0.99
70_R	80_K	0.628	0.99
136_T	139_F	0.625	0.99
67_L	128_I	0.625	0.99
62_V	83_I	0.623	0.99
135_E	138_A	0.621	0.99
43_V	78_L	0.619	0.98
86_V	89_A	0.617	0.98
21_F	28_Y	0.613	0.98
57_V	106_I	0.609	0.98
51_E	132_R	0.608	0.98
109_P	130_Y	0.596	0.98
68_T	82_T	0.592	0.98
56_I	97_R	0.592	0.98
30_A	34_F	0.588	0.98
88_P	95_R	0.585	0.98
26_L	31_P	0.585	0.98
134_V	139_F	0.584	0.98
47_Y	89_A	0.577	0.98
73_S	76_Q	0.576	0.98
29_K	34_F	0.576	0.98
53_N	112_A	0.573	0.97
85_P	99_Y	0.568	0.97
23_T	33_H	0.567	0.97
23_T	27_K	0.562	0.97
55_I	69_I	0.562	0.97
59_M	102_I	0.558	0.97
20_D	25_V	0.557	0.97
73_S	139_F	0.553	0.97
32_E	35_F	0.553	0.97
41_T	45_D	0.551	0.97
119_I	128_I	0.549	0.97
64_E	121_L	0.547	0.97
52_Y	132_R	0.542	0.97
58_E	99_Y	0.541	0.96
133_Q	136_T	0.540	0.96
23_T	28_Y	0.538	0.96
48_Q	64_E	0.537	0.96
25_V	31_P	0.536	0.96
33_H	36_D	0.535	0.96
98_Y	130_Y	0.533	0.96
62_V	100_G	0.527	0.96
49_D	129_S	0.526	0.96
45_D	94_L	0.524	0.96
137_V	140_N	0.523	0.96
45_D	92_E	0.517	0.95
21_F	27_K	0.517	0.95
42_F	79_I	0.516	0.95
97_R	125_L	0.516	0.95
74_K	111_A	0.513	0.95
71_L	77_L	0.510	0.95
64_E	122_L	0.508	0.95
108_L	112_A	0.507	0.95
85_P	88_P	0.505	0.95
95_R	99_Y	0.502	0.95
62_V	66_E	0.501	0.95
35_F	39_A	0.500	0.95

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
4eldA	4	0.7692	100	0.251	Contact Map
3w1zA	7	0.9301	100	0.292	Contact Map
1gmeA	6	0.972	100	0.298	Contact Map
3aabA	2	0.7832	99.9	0.333	Contact Map
3glaA	2	0.6853	99.9	0.351	Contact Map
4feiA	2	0.7133	99.9	0.369	Contact Map
4ydzA	4	0.8112	99.9	0.382	Contact Map
2bolA	2	0.9441	99.9	0.4	Contact Map
2klrA	2	0.5664	99.9	0.415	Contact Map
4jutA	4	0.6224	99.9	0.418	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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