Spore_III_AB - PFAM28P - GREMLIN Contacts

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Spore_III_AB - Stage III sporulation protein AB (spore_III_AB)

PFAM:	PF09548	Sequences: KLIGALLIILACTLIGFLLARRLKRRPRQLRELISALQLLETEISYGRTPLPEALERIAKRLEGPVSEFFEEAAERLEENEGESFGEAWEEALEELWKETALKKEDKEILLQLGKTLGRSDREGQLKHLELALEQLEREEEEAEEEQKKNEKLYRSLGVLGGLLIVILLI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	170 (170)
Sequences:	2729 (2406)
Seq/√Len:	184.6
META:	0.752

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
41_E	130_E	3.262	1.00
89_W	114_G	3.190	1.00
36_A	70_F	3.175	1.00
40_L	54_A	2.901	1.00
9_I	166_V	2.640	1.00
134_E	137_E	2.455	1.00
76_R	91_E	2.397	1.00
34_I	137_E	2.229	1.00
106_D	139_E	2.140	1.00
118_G	125_Q	2.134	1.00
26_R	106_D	2.122	1.00
146_E	150_N	2.113	1.00
12_C	162_G	2.030	1.00
121_D	124_G	2.012	1.00
76_R	92_A	2.005	1.00
84_S	87_E	1.954	1.00
72_E	95_E	1.950	1.00
43_E	49_T	1.933	1.00
59_A	71_E	1.905	1.00
34_I	140_E	1.890	1.00
55_L	73_A	1.870	1.00
13_T	159_V	1.863	1.00
31_R	144_E	1.862	1.00
103_K	106_D	1.842	1.00
48_R	122_R	1.799	1.00
113_L	129_L	1.686	1.00
147_Q	151_E	1.641	1.00
152_K	156_S	1.635	1.00
4_G	7_L	1.632	1.00
97_W	107_K	1.599	1.00
41_E	133_L	1.554	1.00
30_L	106_D	1.547	1.00
64_G	67_S	1.546	1.00
145_E	149_K	1.541	1.00
69_F	73_A	1.539	1.00
145_E	148_K	1.527	1.00
45_S	126_L	1.521	1.00
37_L	129_L	1.505	1.00
94_E	111_L	1.466	1.00
56_E	74_A	1.456	1.00
141_E	145_E	1.440	1.00
21_R	25_R	1.433	1.00
90_E	111_L	1.414	1.00
90_E	94_E	1.383	1.00
88_A	92_A	1.378	1.00
56_E	78_E	1.373	1.00
5_A	166_V	1.363	1.00
29_Q	101_A	1.359	1.00
105_E	139_E	1.312	1.00
19_L	22_R	1.311	1.00
24_K	28_R	1.308	1.00
141_E	144_E	1.290	1.00
27_P	147_Q	1.256	1.00
42_T	120_S	1.253	1.00
72_E	96_L	1.247	1.00
24_K	147_Q	1.246	1.00
20_A	158_G	1.233	1.00
31_R	140_E	1.231	1.00
120_S	124_G	1.207	1.00
93_L	107_K	1.205	1.00
158_G	162_G	1.195	1.00
43_E	57_R	1.193	1.00
72_E	75_E	1.190	1.00
38_Q	133_L	1.187	1.00
13_T	17_F	1.182	1.00
120_S	125_Q	1.179	1.00
42_T	124_G	1.171	1.00
30_L	143_A	1.155	1.00
64_G	68_E	1.132	1.00
19_L	154_Y	1.132	1.00
160_L	164_L	1.127	1.00
19_L	23_L	1.114	1.00
140_E	144_E	1.112	1.00
4_G	11_A	1.109	1.00
156_S	160_L	1.104	1.00
90_E	115_K	1.096	1.00
34_I	133_L	1.093	1.00
12_C	161_G	1.087	1.00
107_K	111_L	1.083	1.00
154_Y	158_G	1.063	1.00
109_I	132_A	1.059	1.00
25_R	28_R	1.056	1.00
9_I	163_L	1.055	1.00
33_L	110_L	1.050	1.00
130_E	133_L	1.043	1.00
144_E	147_Q	1.038	1.00
93_L	110_L	1.037	1.00
23_L	143_A	1.030	1.00
97_W	100_T	1.022	1.00
138_R	141_E	1.001	0.99
74_A	78_E	1.000	0.99
135_Q	138_R	1.000	0.99
9_I	12_C	0.997	0.99
139_E	142_E	0.982	0.99
76_R	95_E	0.974	0.99
24_K	151_E	0.956	0.99
137_E	141_E	0.953	0.99
72_E	92_A	0.950	0.99
26_R	143_A	0.950	0.99
123_E	126_L	0.949	0.99
30_L	136_L	0.948	0.99
50_P	53_E	0.947	0.99
33_L	100_T	0.943	0.99
16_G	20_A	0.940	0.99
86_G	115_K	0.938	0.99
105_E	142_E	0.938	0.99
44_I	122_R	0.937	0.99
4_G	8_I	0.931	0.99
36_A	66_V	0.924	0.99
94_E	107_K	0.923	0.99
108_E	112_Q	0.920	0.99
71_E	75_E	0.916	0.99
137_E	140_E	0.907	0.99
29_Q	65_P	0.906	0.99
86_G	90_E	0.902	0.99
126_L	130_E	0.901	0.99
13_T	158_G	0.899	0.99
44_I	54_A	0.894	0.99
92_A	96_L	0.890	0.99
5_A	9_I	0.889	0.99
17_F	155_R	0.869	0.98
91_E	95_E	0.868	0.98
37_L	132_A	0.863	0.98
27_P	140_E	0.855	0.98
129_L	133_L	0.855	0.98
39_L	43_E	0.851	0.98
76_R	79_E	0.843	0.98
161_G	164_L	0.841	0.98
32_E	63_E	0.839	0.98
153_L	157_L	0.826	0.98
41_E	127_K	0.826	0.98
138_R	142_E	0.818	0.98
15_I	19_L	0.812	0.98
62_L	65_P	0.808	0.97
38_Q	41_E	0.802	0.97
26_R	103_K	0.801	0.97
59_A	67_S	0.799	0.97
85_F	88_A	0.799	0.97
29_Q	100_T	0.797	0.97
27_P	31_R	0.789	0.97
93_L	111_L	0.785	0.97
151_E	155_R	0.784	0.97
130_E	134_E	0.780	0.97
75_E	79_E	0.773	0.97
27_P	143_A	0.769	0.97
42_T	128_H	0.768	0.97
59_A	74_A	0.756	0.96
68_E	99_E	0.745	0.96
142_E	146_E	0.745	0.96
83_E	88_A	0.741	0.96
119_R	124_G	0.739	0.96
55_L	58_I	0.734	0.96
10_L	14_L	0.729	0.95
72_E	76_R	0.724	0.95
40_L	129_L	0.723	0.95
9_I	159_V	0.718	0.95
20_A	155_R	0.716	0.95
54_A	58_I	0.715	0.95
83_E	87_E	0.714	0.95
41_E	126_L	0.713	0.95
127_K	131_L	0.712	0.95
17_F	21_R	0.708	0.95
89_W	93_L	0.699	0.94
124_G	128_H	0.697	0.94
65_P	68_E	0.695	0.94
109_I	139_E	0.687	0.94
144_E	148_K	0.687	0.94
147_Q	150_N	0.685	0.94
25_R	29_Q	0.684	0.94
51_L	54_A	0.684	0.94
73_A	88_A	0.683	0.94
83_E	91_E	0.681	0.93
153_L	156_S	0.678	0.93
30_L	140_E	0.677	0.93
49_T	52_P	0.674	0.93
47_G	131_L	0.674	0.93
132_A	136_L	0.667	0.93
73_A	92_A	0.666	0.93
32_E	35_S	0.658	0.92
41_E	45_S	0.657	0.92
2_L	5_A	0.657	0.92
135_Q	139_E	0.654	0.92
34_I	38_Q	0.651	0.92
113_L	132_A	0.650	0.92
69_F	96_L	0.648	0.92
75_E	78_E	0.643	0.91
33_L	69_F	0.640	0.91
103_K	146_E	0.640	0.91
96_L	99_E	0.637	0.91
73_A	85_F	0.637	0.91
23_L	146_E	0.634	0.91
15_I	161_G	0.632	0.91
76_R	83_E	0.628	0.90
39_L	58_I	0.628	0.90
68_E	75_E	0.626	0.90
112_Q	135_Q	0.619	0.90
33_L	70_F	0.617	0.90
85_F	89_W	0.615	0.89
143_A	151_E	0.614	0.89
68_E	71_E	0.614	0.89
20_A	151_E	0.614	0.89
36_A	54_A	0.613	0.89
150_N	154_Y	0.610	0.89
17_F	20_A	0.610	0.89
29_Q	66_V	0.609	0.89
113_L	116_T	0.607	0.89
32_E	64_G	0.605	0.89
16_G	158_G	0.601	0.88
21_R	24_K	0.596	0.88
38_Q	130_E	0.595	0.88
23_L	151_E	0.593	0.88
128_H	132_A	0.588	0.87
40_L	51_L	0.587	0.87
138_R	144_E	0.585	0.87
97_W	104_K	0.584	0.87
156_S	167_I	0.583	0.87
66_V	70_F	0.580	0.87
18_L	22_R	0.579	0.86
30_L	102_L	0.578	0.86
66_V	69_F	0.574	0.86
116_T	128_H	0.573	0.86
16_G	162_G	0.573	0.86
33_L	102_L	0.569	0.86
40_L	117_L	0.568	0.85
44_I	129_L	0.566	0.85
67_S	71_E	0.566	0.85
142_E	148_K	0.564	0.85
38_Q	127_K	0.561	0.85
46_Y	121_D	0.560	0.85
45_S	122_R	0.559	0.85
103_K	139_E	0.558	0.84
17_F	129_L	0.556	0.84
109_I	135_Q	0.555	0.84
45_S	48_R	0.550	0.84
62_L	141_E	0.546	0.83
18_L	21_R	0.544	0.83
56_E	71_E	0.543	0.83
9_I	13_T	0.542	0.83
114_G	125_Q	0.539	0.82
102_L	110_L	0.537	0.82
51_L	55_L	0.533	0.82
26_R	30_L	0.523	0.80
108_E	111_L	0.520	0.80
49_T	57_R	0.519	0.80
2_L	71_E	0.517	0.80
109_I	136_L	0.517	0.80
8_I	12_C	0.514	0.79
23_L	150_N	0.513	0.79
109_I	112_Q	0.511	0.79
139_E	143_A	0.510	0.79
79_E	99_E	0.508	0.78
22_R	25_R	0.508	0.78
149_K	153_L	0.502	0.78
90_E	95_E	0.501	0.78
164_L	168_L	0.500	0.77

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
2whnA	1	0.6353	15.1	0.907	Contact Map
3c1qA	2	0.6941	13.2	0.909	Contact Map
1ykeB	1	0.6824	13.1	0.909	Contact Map
4hhxA	1	0.5882	9.9	0.914	Contact Map
4qinA	2	0.7882	7.2	0.919	Contact Map
1ykhB	1	0.6647	6.8	0.92	Contact Map
4iz7B	1	0.5294	5.4	0.924	Contact Map
4heiA	1	0.5412	5.4	0.924	Contact Map
2i68A	2	0.1059	5.2	0.924	Contact Map
3j8bL	1	0.8412	5.2	0.924	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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