SP2AB - BACSU - GREMLIN Contacts

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SP2AB - Anti-sigma F factor

UniProt:	P10728	Sequences: MKNEMHLEFSALSQNESFARVTVASFIAQLDPTMDELTEIKTVVSEAVTNAIIHGYEENCEGKVYISVTLEDHVVYMTIRDEGLGITDLEEARQPLFTTKPELERSGMGFTIMENFMDDVSIDSSPEMGTTIRLTKHLSKSKALCN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	146 (134)
Sequences:	1125 (847)
Seq/√Len:	73.1

BACSU - SP2AB RSBW

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
80_R	131_T	3.170	1.00
51_A	55_G	2.914	1.00
23_V	68_V	2.885	1.00
119_D	135_T	2.852	1.00
27_I	40_I	2.813	1.00
6_H	67_S	2.793	1.00
27_I	75_V	2.775	1.00
23_V	66_I	2.681	1.00
51_A	64_V	2.648	1.00
91_E	94_Q	2.473	1.00
74_V	135_T	2.463	1.00
59_N	62_G	2.336	1.00
8_E	63_K	2.315	1.00
117_M	120_V	2.267	1.00
74_V	137_H	2.249	1.00
117_M	134_L	2.129	1.00
57_E	84_L	2.024	1.00
10_S	63_K	1.946	1.00
40_I	117_M	1.920	1.00
43_V	112_I	1.899	1.00
43_V	117_M	1.895	1.00
78_T	133_R	1.863	1.00
8_E	65_Y	1.821	1.00
76_Y	133_R	1.808	1.00
40_I	138_L	1.806	1.00
47_A	113_M	1.804	1.00
69_T	76_Y	1.785	1.00
6_H	65_Y	1.750	1.00
57_E	100_K	1.721	1.00
65_Y	80_R	1.642	1.00
67_S	78_T	1.619	0.99
113_M	132_I	1.536	0.99
5_M	68_V	1.491	0.99
121_S	133_R	1.481	0.99
117_M	136_K	1.445	0.99
118_D	136_K	1.409	0.99
4_E	69_T	1.399	0.98
71_E	74_V	1.393	0.98
65_Y	82_E	1.392	0.98
52_I	64_V	1.389	0.98
56_Y	62_G	1.326	0.98
112_I	115_N	1.326	0.98
66_I	79_I	1.290	0.97
123_D	131_T	1.265	0.97
9_F	64_V	1.241	0.97
11_A	56_Y	1.228	0.96
87_T	126_P	1.182	0.96
93_R	114_E	1.139	0.95
9_F	66_I	1.129	0.94
110_F	122_I	1.127	0.94
120_V	134_L	1.123	0.94
11_A	64_V	1.115	0.94
42_T	116_F	1.083	0.93
33_T	36_E	1.068	0.93
100_K	103_L	1.061	0.92
11_A	61_E	1.057	0.92
47_A	79_I	1.057	0.92
39_E	43_V	1.051	0.92
85_G	130_T	1.046	0.92
43_V	77_M	1.042	0.92
113_M	134_L	1.030	0.91
20_R	45_S	1.009	0.90
122_I	130_T	1.008	0.90
73_H	137_H	1.007	0.90
23_V	40_I	1.005	0.90
13_S	16_E	1.005	0.90
48_V	64_V	0.997	0.90
110_F	113_M	0.987	0.89
74_V	82_E	0.956	0.88
27_I	32_P	0.949	0.87
47_A	134_L	0.939	0.87
106_S	112_I	0.910	0.85
93_R	122_I	0.904	0.85
16_E	32_P	0.900	0.84
9_F	19_A	0.890	0.84
90_E	93_R	0.878	0.83
4_E	63_K	0.868	0.82
68_V	75_V	0.867	0.82
44_V	79_I	0.864	0.82
16_E	42_T	0.838	0.80
4_E	57_E	0.835	0.80
106_S	111_T	0.826	0.79
36_E	136_K	0.824	0.79
24_A	41_K	0.820	0.78
22_T	66_I	0.819	0.78
12_L	22_T	0.814	0.78
32_P	138_L	0.814	0.78
39_E	49_T	0.812	0.78
89_L	95_P	0.808	0.77
119_D	137_H	0.800	0.77
53_I	106_S	0.798	0.76
20_R	41_K	0.798	0.76
5_M	23_V	0.798	0.76
23_V	70_L	0.790	0.76
93_R	112_I	0.781	0.75
47_A	132_I	0.781	0.75
49_T	52_I	0.772	0.74
25_S	74_V	0.767	0.74
34_M	112_I	0.764	0.73
83_G	109_G	0.753	0.72
4_E	67_S	0.748	0.72
45_S	130_T	0.748	0.72
10_S	59_N	0.748	0.72
83_G	107_G	0.745	0.71
63_K	82_E	0.742	0.71
4_E	7_L	0.738	0.71
76_Y	135_T	0.737	0.71
24_A	34_M	0.737	0.71
61_E	121_S	0.731	0.70
4_E	38_T	0.727	0.69
85_G	106_S	0.720	0.69
53_I	123_D	0.717	0.68
28_A	37_L	0.714	0.68
79_I	134_L	0.708	0.67
18_F	30_L	0.707	0.67
21_V	25_S	0.707	0.67
7_L	22_T	0.705	0.67
20_R	39_E	0.702	0.67
122_I	129_G	0.686	0.65
31_D	37_L	0.686	0.65
36_E	117_M	0.679	0.64
78_T	131_T	0.678	0.64
67_S	75_V	0.678	0.64
11_A	59_N	0.676	0.64
35_D	39_E	0.674	0.64
32_P	38_T	0.674	0.64
10_S	61_E	0.672	0.63
16_E	45_S	0.656	0.62
111_T	115_N	0.654	0.61
124_S	130_T	0.651	0.61
43_V	134_L	0.647	0.60
11_A	116_F	0.635	0.59
18_F	40_I	0.633	0.59
88_D	91_E	0.632	0.59
5_M	18_F	0.630	0.58
54_H	81_D	0.621	0.57
30_L	70_L	0.619	0.57
50_N	109_G	0.619	0.57
103_L	106_S	0.619	0.57
107_G	129_G	0.615	0.57
54_H	95_P	0.612	0.56
6_H	80_R	0.610	0.56
78_T	84_L	0.609	0.56
4_E	65_Y	0.607	0.56
87_T	90_E	0.606	0.56
45_S	86_I	0.604	0.55
92_A	97_F	0.601	0.55
54_H	83_G	0.600	0.55
4_E	76_Y	0.596	0.54
37_L	41_K	0.592	0.54
119_D	133_R	0.589	0.53
32_P	108_M	0.585	0.53
5_M	17_S	0.583	0.53
37_L	115_N	0.583	0.53
42_T	45_S	0.581	0.52
50_N	81_D	0.580	0.52
88_D	92_A	0.578	0.52
88_D	127_E	0.577	0.52
96_L	106_S	0.576	0.52
28_A	114_E	0.574	0.52
89_L	132_I	0.574	0.52
74_V	119_D	0.568	0.51
72_D	139_S	0.568	0.51
72_D	91_E	0.566	0.51
73_H	139_S	0.565	0.50
64_V	139_S	0.562	0.50
81_D	109_G	0.560	0.50
42_T	115_N	0.559	0.50
80_R	138_L	0.556	0.49
76_Y	123_D	0.555	0.49
57_E	61_E	0.553	0.49
57_E	138_L	0.553	0.49
21_V	112_I	0.552	0.49
16_E	26_F	0.551	0.49
18_F	25_S	0.549	0.48
92_A	95_P	0.547	0.48
80_R	102_E	0.543	0.48
11_A	62_G	0.542	0.48
57_E	102_E	0.541	0.47
16_E	108_M	0.538	0.47
92_A	124_S	0.538	0.47
50_N	107_G	0.536	0.47
25_S	111_T	0.536	0.47
81_D	107_G	0.534	0.47
49_T	96_L	0.532	0.46
45_S	110_F	0.532	0.46
70_L	90_E	0.528	0.46
61_E	69_T	0.528	0.46
106_S	116_F	0.525	0.46
63_K	80_R	0.520	0.45
22_T	68_V	0.520	0.45
53_I	130_T	0.517	0.45
16_E	19_A	0.517	0.45
4_E	82_E	0.513	0.44
54_H	109_G	0.508	0.43
92_A	122_I	0.507	0.43
69_T	74_V	0.505	0.43
21_V	80_R	0.504	0.43
54_H	107_G	0.501	0.43
48_V	105_R	0.500	0.42
129_G	132_I	0.500	0.42

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
1th8A	2	0.9041	99.9	0.491	Contact Map
3ke6A	2	0.8356	99.8	0.55	Contact Map
4r3aA	1	0.9041	99.3	0.697	Contact Map
1i58A	2	0.9178	99.2	0.711	Contact Map
1b3qA	2	1	99.1	0.714	Contact Map
4r39A	1	0.9247	99.1	0.721	Contact Map
3zxqA	2	0.7329	99	0.724	Contact Map
3ehhA	2	0.7945	99	0.726	Contact Map
4bixA	2	0.9041	99	0.726	Contact Map
3a0rA	2	0.8904	99	0.728	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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