CSSR - BACSU - GREMLIN Contacts

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CSSR - Transcriptional regulatory protein CssR

UniProt:	O32192	Sequences: MSYTIYLVEDEDNLNELLTKYLENEGWNITSFTKGEDARKKMTPSPHLWILDIMLPDTDGYTLIKEIKAKDPDVPVIFISARDADIDRVLGLELGSNDYISKPFLPRELIIRVQKLLQLVYKEAPPVQKNEIAVSSYRVAEDAREVYDENGNIINLTSKEFDLLLLFIHHKGHPYSREDILLKVWGHDYFGTDRVVDDLVRRLRRKMPELKVETIYGFGYRMMSS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	225 (202)
Sequences:	77783 (55955)
Seq/√Len:	3937.0

ECOLI - TORR BASR QSEB PHOB CPXR ARCA CUSR PHOP YEDW BAER KDPE RSTA CREB OMPR UVRY DCUR DPIA FIMZ YHJB YJJQ EVGA NARP YGEK TORS BGLJ RCSB NARL CSGD RSSB BARA UHPA RCSC RCSA YEHT ARCB YPDB CHEB NTRC GLRR ZRAR EVGS ATOC RCSD
BACSU - CSSR YRKP YVRH YYCF PHOP YCBL YXDJ YCLJ YVCP YKOG RESD BCER CITT YFIK YBDJ MALR DCTR CMPA YXJL LIAR DEGU YVFU YHCZ YESN DESR YDFI LYTT GLNL CHEB NATR SP0A CHEV
HALSA - CHEB Q9HR09 Q9HNM3 Q9HRE5 BAT O51970 Q9HP91 F2Z6H5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
15_N	31_S	3.739	1.00
15_N	33_T	3.334	1.00
19_T	31_S	3.200	1.00
8_V	38_A	2.734	1.00
39_R	66_E	2.685	1.00
36_E	57_D	2.592	1.00
30_T	46_P	2.587	1.00
35_G	58_T	2.489	1.00
58_T	66_E	2.398	1.00
43_T	70_K	2.372	1.00
34_K	57_D	2.354	1.00
4_T	30_T	2.184	1.00
21_Y	106_P	2.089	1.00
32_F	41_K	2.041	1.00
25_E	110_I	2.008	1.00
4_T	28_N	1.979	1.00
19_T	23_E	1.974	1.00
33_T	37_D	1.922	1.00
88_R	108_E	1.922	1.00
54_M	82_R	1.895	1.00
51_L	63_L	1.844	1.00
194_R	197_D	1.836	1.00
159_K	162_D	1.777	1.00
30_T	41_K	1.776	1.00
64_I	76_V	1.763	1.00
34_K	37_D	1.747	1.00
78_F	91_G	1.741	1.00
6_Y	32_F	1.733	1.00
85_D	105_L	1.681	1.00
66_E	70_K	1.678	1.00
68_K	97_N	1.669	1.00
78_F	96_S	1.664	1.00
177_R	197_D	1.625	1.00
58_T	62_T	1.612	1.00
65_K	94_L	1.582	1.00
35_G	63_L	1.578	1.00
98_D	112_R	1.574	1.00
166_L	183_K	1.545	1.00
59_D	62_T	1.535	1.00
136_S	150_N	1.534	1.00
165_L	169_H	1.527	1.00
3_Y	117_L	1.493	1.00
22_L	113_V	1.471	1.00
66_E	69_A	1.455	1.00
42_M	67_I	1.448	1.00
36_E	58_T	1.445	1.00
82_R	87_D	1.438	1.00
41_K	46_P	1.422	1.00
64_I	78_F	1.409	1.00
199_L	202_R	1.391	1.00
62_T	65_K	1.390	1.00
39_R	63_L	1.389	1.00
49_W	74_V	1.382	1.00
41_K	44_P	1.372	1.00
176_S	179_D	1.367	1.00
48_L	113_V	1.355	1.00
12_D	33_T	1.329	1.00
175_Y	183_K	1.324	1.00
166_L	170_H	1.304	1.00
97_N	116_L	1.279	1.00
9_E	15_N	1.273	1.00
97_N	119_L	1.272	1.00
133_A	138_R	1.271	1.00
53_I	61_Y	1.269	1.00
77_I	116_L	1.266	1.00
160_E	206_K	1.264	1.00
10_D	52_D	1.258	1.00
51_L	64_I	1.256	1.00
39_R	58_T	1.233	1.00
53_I	78_F	1.212	1.00
71_D	74_V	1.212	1.00
61_Y	91_G	1.205	1.00
37_D	41_K	1.193	1.00
32_F	38_A	1.192	1.00
8_V	55_L	1.179	1.00
140_A	143_A	1.178	1.00
27_W	114_Q	1.176	1.00
179_D	183_K	1.171	1.00
37_D	40_K	1.170	1.00
90_L	94_L	1.163	1.00
84_A	87_D	1.161	1.00
145_E	153_I	1.161	1.00
6_Y	46_P	1.160	1.00
138_R	147_Y	1.157	1.00
36_E	40_K	1.140	1.00
110_I	114_Q	1.135	1.00
6_Y	38_A	1.134	1.00
61_Y	90_L	1.128	1.00
85_D	89_V	1.104	1.00
25_E	114_Q	1.091	1.00
40_K	44_P	1.081	1.00
198_D	201_R	1.075	1.00
171_K	175_Y	1.073	1.00
6_Y	41_K	1.067	1.00
178_E	193_D	1.060	1.00
5_I	27_W	1.060	1.00
38_A	63_L	1.041	1.00
141_E	165_L	1.035	1.00
93_E	114_Q	1.034	1.00
48_L	117_L	1.021	1.00
86_I	90_L	1.020	1.00
26_G	114_Q	1.019	1.00
108_E	111_I	1.019	1.00
65_K	90_L	1.019	1.00
139_V	168_I	1.012	1.00
161_F	165_L	1.009	1.00
89_V	93_E	1.008	1.00
38_A	42_M	0.998	1.00
162_D	165_L	0.995	1.00
111_I	115_K	0.994	1.00
49_W	67_I	0.988	1.00
19_T	29_I	0.983	1.00
16_E	31_S	0.981	1.00
7_L	18_L	0.981	1.00
194_R	198_D	0.981	1.00
32_F	37_D	0.979	1.00
166_L	175_Y	0.977	1.00
39_R	43_T	0.972	1.00
61_Y	94_L	0.967	1.00
51_L	76_V	0.967	1.00
12_D	16_E	0.961	1.00
6_Y	42_M	0.953	1.00
53_I	59_D	0.950	1.00
88_R	101_S	0.948	1.00
8_V	49_W	0.947	1.00
3_Y	27_W	0.947	1.00
131_E	138_R	0.942	1.00
195_V	199_L	0.932	1.00
18_L	79_I	0.930	1.00
200_V	204_R	0.923	1.00
50_I	109_L	0.919	1.00
49_W	76_V	0.919	1.00
13_N	17_L	0.918	1.00
8_V	32_F	0.909	1.00
158_S	162_D	0.907	1.00
64_I	96_S	0.895	1.00
62_T	66_E	0.891	1.00
64_I	94_L	0.883	1.00
85_D	88_R	0.881	1.00
12_D	15_N	0.879	1.00
77_I	112_R	0.858	1.00
16_E	19_T	0.850	1.00
51_L	78_F	0.849	1.00
147_Y	153_I	0.846	1.00
90_L	93_E	0.846	1.00
7_L	29_I	0.844	1.00
139_V	161_F	0.843	1.00
53_I	87_D	0.839	1.00
40_K	43_T	0.836	1.00
27_W	110_I	0.835	1.00
83_D	101_S	0.832	1.00
175_Y	179_D	0.831	1.00
55_L	63_L	0.827	1.00
89_V	107_R	0.826	1.00
116_L	119_L	0.823	1.00
20_K	24_N	0.823	1.00
193_D	197_D	0.818	1.00
75_P	97_N	0.816	1.00
4_T	47_H	0.816	1.00
201_R	205_R	0.815	1.00
166_L	180_I	0.802	1.00
106_P	110_I	0.802	1.00
108_E	112_R	0.801	1.00
63_L	67_I	0.800	1.00
18_L	109_L	0.794	1.00
42_M	74_V	0.794	1.00
144_R	162_D	0.792	1.00
53_I	82_R	0.790	1.00
4_T	46_P	0.789	1.00
58_T	63_L	0.789	1.00
42_M	71_D	0.787	1.00
14_L	104_F	0.787	1.00
87_D	90_L	0.783	1.00
210_L	213_E	0.782	1.00
194_R	201_R	0.779	1.00
115_K	118_Q	0.778	1.00
202_R	205_R	0.778	1.00
65_K	69_A	0.777	1.00
178_E	182_L	0.771	1.00
42_M	46_P	0.769	1.00
35_G	39_R	0.762	1.00
8_V	63_L	0.756	1.00
50_I	79_I	0.755	1.00
92_L	112_R	0.752	1.00
16_E	20_K	0.752	1.00
117_L	120_V	0.751	1.00
105_L	108_E	0.745	1.00
136_S	149_E	0.743	1.00
137_Y	149_E	0.740	1.00
86_I	107_R	0.739	1.00
157_T	206_K	0.737	1.00
54_M	81_A	0.731	1.00
35_G	57_D	0.722	1.00
163_L	167_F	0.719	1.00
120_V	124_A	0.718	1.00
50_I	113_V	0.717	1.00
104_F	109_L	0.711	1.00
79_I	104_F	0.708	1.00
144_R	161_F	0.707	1.00
168_I	171_K	0.697	1.00
17_L	21_Y	0.690	1.00
3_Y	121_Y	0.690	1.00
177_R	193_D	0.688	1.00
93_E	111_I	0.684	1.00
149_E	208_P	0.680	1.00
179_D	182_L	0.679	1.00
67_I	72_P	0.677	1.00
131_E	140_A	0.674	1.00
204_R	209_E	0.674	1.00
39_R	42_M	0.674	1.00
167_F	171_K	0.672	1.00
67_I	76_V	0.669	1.00
7_L	19_T	0.668	1.00
7_L	31_S	0.664	1.00
198_D	202_R	0.662	1.00
107_R	111_I	0.660	1.00
147_Y	151_G	0.659	1.00
91_G	96_S	0.659	1.00
21_Y	110_I	0.657	1.00
42_M	49_W	0.656	1.00
115_K	120_V	0.656	1.00
112_R	116_L	0.656	1.00
43_T	66_E	0.655	1.00
166_L	169_H	0.653	1.00
15_N	19_T	0.647	1.00
133_A	136_S	0.643	1.00
98_D	115_K	0.638	1.00
9_E	55_L	0.635	1.00
157_T	160_E	0.633	1.00
169_H	183_K	0.630	1.00
75_P	119_L	0.628	1.00
77_I	98_D	0.628	1.00
73_D	123_E	0.627	1.00
61_Y	87_D	0.626	1.00
45_S	71_D	0.626	1.00
85_D	107_R	0.624	1.00
197_D	200_V	0.623	1.00
11_E	14_L	0.622	1.00
50_I	77_I	0.621	1.00
75_P	117_L	0.621	1.00
39_R	70_K	0.619	1.00
53_I	91_G	0.618	1.00
3_Y	47_H	0.618	1.00
164_L	214_T	0.617	1.00
35_G	55_L	0.614	1.00
130_N	142_D	0.613	1.00
68_K	75_P	0.610	1.00
23_E	29_I	0.606	1.00
5_I	22_L	0.606	1.00
88_R	105_L	0.603	1.00
73_D	122_K	0.596	1.00
208_P	211_K	0.594	1.00
14_L	17_L	0.593	1.00
114_Q	118_Q	0.593	1.00
137_Y	146_V	0.590	1.00
11_E	81_A	0.590	1.00
75_P	123_E	0.587	1.00
51_L	55_L	0.585	1.00
5_I	48_L	0.583	1.00
43_T	71_D	0.581	1.00
104_F	108_E	0.581	1.00
64_I	68_K	0.581	1.00
80_S	88_R	0.579	1.00
22_L	27_W	0.579	1.00
143_A	147_Y	0.577	1.00
52_D	102_K	0.577	1.00
21_Y	25_E	0.577	1.00
167_F	200_V	0.577	1.00
111_I	114_Q	0.573	1.00
75_P	120_V	0.568	1.00
191_G	196_V	0.567	1.00
192_T	195_V	0.566	1.00
211_K	214_T	0.566	1.00
68_K	74_V	0.564	1.00
42_M	63_L	0.562	1.00
51_L	67_I	0.557	1.00
141_E	169_H	0.546	1.00
159_K	199_L	0.545	1.00
34_K	55_L	0.544	1.00
37_D	57_D	0.543	1.00
139_V	165_L	0.542	1.00
86_I	89_V	0.535	1.00
10_D	80_S	0.533	1.00
162_D	166_L	0.524	1.00
8_V	35_G	0.524	1.00
160_E	163_L	0.521	1.00
23_E	28_N	0.519	1.00
140_A	145_E	0.518	1.00
7_L	15_N	0.515	1.00
32_F	35_G	0.515	1.00
149_E	209_E	0.514	1.00
149_E	152_N	0.511	1.00
89_V	92_L	0.510	1.00
67_I	74_V	0.508	1.00
5_I	113_V	0.508	1.00
17_L	20_K	0.507	1.00
107_R	110_I	0.507	1.00
115_K	119_L	0.506	1.00
169_H	175_Y	0.505	1.00
20_K	23_E	0.503	1.00
126_P	129_K	0.502	1.00
177_R	181_L	0.501	1.00
81_A	103_P	0.500	1.00

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
3r0jA	2	0.9644	100	0.18	Contact Map
2gwrA	1	0.9644	100	0.194	Contact Map
2oqrA	2	0.9778	100	0.195	Contact Map
1ys7A	2	0.9867	100	0.205	Contact Map
1kgsA	1	0.9511	100	0.212	Contact Map
1p2fA	1	0.9422	100	0.224	Contact Map
4kfcA	2	0.9689	100	0.227	Contact Map
4b09A	2	0.9111	100	0.23	Contact Map
2hqrA	2	0.9378	100	0.245	Contact Map
3q9sA	1	0.9067	100	0.27	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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