CYSM - ECOLI - GREMLIN Contacts

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CYSM - Cysteine synthase B

UniProt:	P16703	Sequences: MSTLEQTIGNTPLVKLQRMGPDNGSEVWLKLEGNNPAGSVKDRAALSMIVEAEKRGEIKPGDVLIEATSGNTGIALAMIAALKGYRMKLLMPDNMSQERRAAMRAYGAELILVTKEQGMEGARDLALEMANRGEGKLLDQFNNPDNPYAHYTTTGPEIWQQTGGRITHFVSSMGTTGTITGVSRFMREQSKPVTIVGLQPEEGSSIPGIRRWPTEYLPGIFNASLVDEVLDIHQRDAENTMRELAVREGIFCGVSSGGAVAGALRVAKANPDAVVVAIICDRGDRYLSTGVFGEEHFSQGAGI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10193
Length:	303 (273)
Sequences:	21152 (11039)
Seq/√Len:	668.1

ECOLI - CYSM CYSK ILVA TDCB DPAL TRPB SDHD DCYD THRC
BACSU - MCCA CYSM CYSK ILVA THRC TRPB SDHD
HALSA - Q9HNH6 Q9HQ70 Q9HRU4 Q9HMQ7 TRPB Q9HNH0 Q9HRP3
SULSO - Q980P1 TRPB1 Q980F2 TRPB2 Q97ZL6 Q97ZT5

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_A	87_M	4.066	1.00
125_L	128_E	3.499	1.00
26_E	274_V	3.437	1.00
15_K	26_E	3.085	1.00
236_D	265_R	2.668	1.00
158_I	276_V	2.654	1.00
97_Q	101_A	2.632	1.00
168_H	196_V	2.553	1.00
243_E	247_R	2.547	1.00
51_E	55_R	2.541	1.00
10_N	160_Q	2.471	1.00
201_E	233_H	2.382	1.00
86_R	109_E	2.373	1.00
93_D	114_T	2.347	1.00
53_E	85_Y	2.333	1.00
194_T	228_E	2.329	1.00
51_E	145_D	2.311	1.00
63_V	88_K	2.240	1.00
90_L	129_M	2.233	1.00
88_K	109_E	2.232	1.00
270_N	273_A	2.229	1.00
128_E	132_R	2.095	1.00
10_N	161_Q	2.065	1.00
50_V	83_K	2.061	1.00
28_W	274_V	2.053	1.00
259_A	277_A	2.046	1.00
202_E	234_Q	2.026	1.00
183_S	225_L	2.023	1.00
156_P	185_F	2.010	1.00
88_K	111_I	1.996	1.00
233_H	236_D	1.970	1.00
142_N	219_G	1.948	1.00
183_S	195_I	1.924	1.00
13_L	276_V	1.911	1.00
151_Y	188_E	1.902	1.00
190_S	193_V	1.816	1.00
53_E	56_G	1.814	1.00
173_M	197_G	1.810	1.00
169_F	186_M	1.797	1.00
198_L	262_G	1.792	1.00
196_V	228_E	1.777	1.00
204_S	208_G	1.765	1.00
244_L	252_C	1.758	1.00
151_Y	184_R	1.692	1.00
127_L	131_N	1.685	1.00
37_A	78_M	1.684	1.00
228_E	269_A	1.670	1.00
28_W	162_T	1.658	1.00
166_I	276_V	1.653	1.00
139_D	142_N	1.636	1.00
240_T	261_A	1.613	1.00
167_T	274_V	1.607	1.00
244_L	260_V	1.594	1.00
243_E	264_L	1.590	1.00
167_T	273_A	1.585	1.00
15_K	28_W	1.580	1.00
187_R	227_D	1.578	1.00
169_F	182_V	1.576	1.00
15_K	20_G	1.541	1.00
68_T	73_G	1.527	1.00
155_G	182_V	1.509	1.00
29_L	279_I	1.505	1.00
100_R	112_L	1.492	1.00
46_L	50_V	1.490	1.00
53_E	83_K	1.489	1.00
159_W	189_Q	1.474	1.00
101_A	104_R	1.468	1.00
168_H	270_N	1.426	1.00
168_H	273_A	1.423	1.00
100_R	104_R	1.417	1.00
179_I	226_V	1.407	1.00
111_I	125_L	1.406	1.00
123_R	127_L	1.399	1.00
155_G	186_M	1.384	1.00
170_V	266_V	1.379	1.00
130_A	137_L	1.327	1.00
48_M	143_N	1.316	1.00
240_T	264_L	1.304	1.00
97_Q	100_R	1.300	1.00
165_R	274_V	1.299	1.00
170_V	198_L	1.291	1.00
168_H	194_T	1.291	1.00
91_M	103_M	1.287	1.00
22_D	243_E	1.285	1.00
118_G	121_G	1.274	1.00
50_V	54_K	1.262	1.00
155_G	185_F	1.256	1.00
261_A	265_R	1.247	1.00
184_R	222_N	1.232	1.00
252_C	279_I	1.227	1.00
236_D	261_A	1.225	1.00
103_M	108_A	1.221	1.00
212_W	258_G	1.219	1.00
266_V	269_A	1.216	1.00
51_E	54_K	1.212	1.00
162_T	166_I	1.212	1.00
47_S	152_T	1.210	1.00
186_M	193_V	1.206	1.00
201_E	231_D	1.206	1.00
90_L	125_L	1.188	1.00
18_R	248_E	1.183	1.00
73_G	103_M	1.181	1.00
127_L	130_A	1.176	1.00
100_R	110_L	1.172	1.00
16_L	29_L	1.172	1.00
159_W	185_F	1.165	1.00
207_P	231_D	1.164	1.00
22_D	247_R	1.163	1.00
256_S	279_I	1.162	1.00
94_N	115_K	1.158	1.00
185_F	189_Q	1.156	1.00
265_R	268_K	1.155	1.00
239_N	243_E	1.146	1.00
179_I	195_I	1.145	1.00
14_V	31_L	1.139	1.00
240_T	260_V	1.139	1.00
156_P	160_Q	1.121	1.00
12_P	34_N	1.120	1.00
204_S	231_D	1.114	1.00
63_V	86_R	1.113	1.00
93_D	115_K	1.112	1.00
13_L	162_T	1.100	1.00
124_D	128_E	1.093	1.00
13_L	158_I	1.092	1.00
236_D	239_N	1.085	1.00
124_D	127_L	1.078	1.00
49_I	64_L	1.072	1.00
232_I	261_A	1.069	1.00
47_S	149_A	1.067	1.00
120_E	124_D	1.063	1.00
235_R	239_N	1.058	1.00
64_L	80_A	1.054	1.00
211_R	214_T	1.052	1.00
197_G	229_V	1.049	1.00
162_T	276_V	1.046	1.00
230_L	262_G	1.045	1.00
55_R	145_D	1.043	1.00
196_V	230_L	1.035	1.00
179_I	197_G	1.033	1.00
204_S	207_P	1.031	1.00
150_H	154_T	1.018	1.00
47_S	51_E	1.017	1.00
245_A	251_F	1.006	1.00
47_S	50_V	1.003	1.00
24_G	271_P	0.999	1.00
49_I	83_K	0.992	1.00
242_R	246_V	0.982	1.00
25_S	273_A	0.982	1.00
17_Q	21_P	0.980	1.00
158_I	166_I	0.979	1.00
168_H	275_V	0.970	1.00
91_M	112_L	0.969	1.00
125_L	129_M	0.969	1.00
81_A	87_M	0.967	1.00
45_A	75_A	0.961	1.00
76_L	87_M	0.960	1.00
241_M	257_G	0.959	1.00
49_I	79_I	0.956	1.00
25_S	272_D	0.955	1.00
65_I	135_G	0.952	1.00
78_M	106_Y	0.952	1.00
48_M	138_L	0.938	1.00
18_R	247_R	0.935	1.00
65_I	126_A	0.929	1.00
75_A	79_I	0.926	1.00
27_V	263_A	0.926	1.00
182_V	278_I	0.923	1.00
62_D	134_E	0.919	1.00
104_R	109_E	0.917	1.00
230_L	265_R	0.916	1.00
18_R	21_P	0.910	1.00
121_G	124_D	0.903	1.00
77_A	108_A	0.901	1.00
128_E	131_N	0.898	1.00
151_Y	185_F	0.897	1.00
263_A	277_A	0.894	1.00
252_C	256_S	0.885	1.00
7_T	46_L	0.876	1.00
173_M	179_I	0.870	1.00
194_T	227_D	0.864	1.00
11_T	35_N	0.863	1.00
216_Y	219_G	0.859	1.00
129_M	133_G	0.856	1.00
256_S	280_C	0.855	1.00
52_A	56_G	0.854	1.00
66_E	89_L	0.853	1.00
159_W	190_S	0.847	1.00
152_T	156_P	0.840	1.00
156_P	189_Q	0.840	1.00
65_I	129_M	0.838	1.00
260_V	279_I	0.837	1.00
52_A	136_K	0.837	1.00
179_I	222_N	0.832	1.00
185_F	188_E	0.827	1.00
130_A	135_G	0.825	1.00
251_F	283_G	0.825	1.00
171_S	182_V	0.822	1.00
170_V	263_A	0.820	1.00
63_V	135_G	0.818	1.00
259_A	280_C	0.811	1.00
31_L	279_I	0.808	1.00
147_P	220_I	0.805	1.00
74_I	103_M	0.803	1.00
101_A	105_A	0.799	1.00
214_T	217_L	0.797	1.00
180_T	220_I	0.797	1.00
211_R	215_E	0.796	1.00
209_I	237_A	0.787	1.00
170_V	262_G	0.786	1.00
16_L	260_V	0.785	1.00
215_E	218_P	0.784	1.00
104_R	112_L	0.781	1.00
149_A	152_T	0.780	1.00
20_G	23_N	0.779	1.00
207_P	229_V	0.779	1.00
62_D	86_R	0.777	1.00
184_R	188_E	0.775	1.00
210_R	214_T	0.775	1.00
170_V	196_V	0.771	1.00
154_T	182_V	0.767	1.00
78_M	82_L	0.765	1.00
16_L	248_E	0.764	1.00
126_A	130_A	0.764	1.00
126_A	137_L	0.762	1.00
194_T	273_A	0.762	1.00
240_T	243_E	0.761	1.00
168_H	266_V	0.761	1.00
166_I	193_V	0.754	1.00
88_K	135_G	0.753	1.00
241_M	284_D	0.753	1.00
260_V	277_A	0.750	1.00
209_I	214_T	0.749	1.00
154_T	278_I	0.745	1.00
159_W	186_M	0.742	1.00
47_S	145_D	0.742	1.00
65_I	130_A	0.741	1.00
264_L	268_K	0.741	1.00
119_M	122_A	0.739	1.00
265_R	269_A	0.737	1.00
205_S	215_E	0.737	1.00
31_L	34_N	0.732	1.00
53_E	57_E	0.730	1.00
238_E	254_V	0.730	1.00
81_A	106_Y	0.729	1.00
88_K	129_M	0.725	1.00
222_N	225_L	0.724	1.00
74_I	102_A	0.723	1.00
230_L	269_A	0.717	1.00
95_M	98_E	0.717	1.00
223_A	226_V	0.715	1.00
164_G	274_V	0.714	1.00
154_T	178_T	0.713	1.00
182_V	186_M	0.711	1.00
154_T	158_I	0.707	1.00
173_M	229_V	0.707	1.00
222_N	226_V	0.705	1.00
147_P	184_R	0.703	1.00
26_E	272_D	0.701	1.00
206_I	229_V	0.700	1.00
29_L	277_A	0.699	1.00
172_S	280_C	0.697	1.00
129_M	132_R	0.696	1.00
113_V	125_L	0.694	1.00
57_E	85_Y	0.694	1.00
89_L	103_M	0.694	1.00
162_T	274_V	0.692	1.00
23_N	243_E	0.685	1.00
40_V	178_T	0.684	1.00
206_I	222_N	0.680	1.00
166_I	274_V	0.677	1.00
87_M	108_A	0.677	1.00
8_I	42_D	0.672	1.00
25_S	275_V	0.671	1.00
209_I	213_P	0.670	1.00
211_R	217_L	0.668	1.00
67_A	137_L	0.666	1.00
64_L	85_Y	0.663	1.00
169_F	278_I	0.662	1.00
86_R	135_G	0.660	1.00
19_M	264_L	0.658	1.00
139_D	143_N	0.657	1.00
237_A	258_G	0.656	1.00
147_P	221_F	0.656	1.00
38_G	282_R	0.656	1.00
20_G	26_E	0.656	1.00
97_Q	104_R	0.654	1.00
115_K	121_G	0.654	1.00
17_Q	20_G	0.652	1.00
210_R	213_P	0.649	1.00
29_L	260_V	0.644	1.00
45_A	79_I	0.642	1.00
169_F	193_V	0.636	1.00
252_C	257_G	0.634	1.00
144_P	147_P	0.633	1.00
159_W	164_G	0.632	1.00
165_R	190_S	0.630	1.00
67_A	119_M	0.630	1.00
228_E	266_V	0.630	1.00
90_L	111_I	0.630	1.00
23_N	264_L	0.628	1.00
95_M	100_R	0.627	1.00
44_A	48_M	0.626	1.00
9_G	36_P	0.625	1.00
160_Q	189_Q	0.623	1.00
51_E	57_E	0.622	1.00
90_L	113_V	0.618	1.00
244_L	279_I	0.612	1.00
123_R	126_A	0.612	1.00
64_L	87_M	0.611	1.00
136_K	143_N	0.611	1.00
77_A	103_M	0.610	1.00
48_M	146_N	0.609	1.00
65_I	90_L	0.607	1.00
196_V	266_V	0.607	1.00
94_N	98_E	0.605	1.00
262_G	266_V	0.605	1.00
234_Q	238_E	0.604	1.00
25_S	270_N	0.604	1.00
244_L	248_E	0.603	1.00
119_M	123_R	0.602	1.00
93_D	112_L	0.602	1.00
16_L	19_M	0.601	1.00
70_G	73_G	0.599	1.00
209_I	212_W	0.598	1.00
159_W	162_T	0.598	1.00
21_P	24_G	0.595	1.00
57_E	136_K	0.595	1.00
241_M	254_V	0.594	1.00
25_S	267_A	0.593	1.00
244_L	250_I	0.593	1.00
170_V	275_V	0.592	1.00
158_I	182_V	0.591	1.00
8_I	46_L	0.590	1.00
20_G	27_V	0.590	1.00
13_L	28_W	0.589	1.00
19_M	260_V	0.588	1.00
206_I	217_L	0.584	1.00
42_D	78_M	0.584	1.00
30_K	157_E	0.582	1.00
210_R	218_P	0.582	1.00
172_S	259_A	0.581	1.00
73_G	89_L	0.579	1.00
200_P	212_W	0.576	1.00
48_M	145_D	0.575	1.00
33_G	282_R	0.571	1.00
7_T	34_N	0.568	1.00
61_G	86_R	0.567	1.00
76_L	138_L	0.567	1.00
31_L	250_I	0.566	1.00
198_L	258_G	0.562	1.00
171_S	179_I	0.561	1.00
91_M	100_R	0.559	1.00
260_V	264_L	0.559	1.00
66_E	76_L	0.558	1.00
88_K	133_G	0.558	1.00
199_Q	205_S	0.557	1.00
37_A	106_Y	0.555	1.00
19_M	240_T	0.554	1.00
149_A	184_R	0.553	1.00
95_M	210_R	0.553	1.00
173_M	206_I	0.552	1.00
169_F	195_I	0.552	1.00
212_W	255_S	0.551	1.00
64_L	138_L	0.551	1.00
217_L	220_I	0.551	1.00
198_L	230_L	0.549	1.00
44_A	72_T	0.549	1.00
102_A	105_A	0.547	1.00
180_T	184_R	0.547	1.00
239_N	242_R	0.545	1.00
36_P	42_D	0.544	1.00
25_S	271_P	0.544	1.00
187_R	225_L	0.544	1.00
22_D	264_L	0.544	1.00
7_T	50_V	0.540	1.00
91_M	95_M	0.537	1.00
109_E	133_G	0.537	1.00
76_L	89_L	0.536	1.00
9_G	35_N	0.536	1.00
19_M	23_N	0.536	1.00
19_M	247_R	0.534	1.00
205_S	208_G	0.534	1.00
119_M	140_Q	0.533	1.00
187_R	224_S	0.532	1.00
48_M	136_K	0.528	1.00
114_T	121_G	0.527	1.00
20_G	25_S	0.525	0.99
256_S	259_A	0.525	0.99
13_L	161_Q	0.523	0.99
29_L	244_L	0.522	0.99
72_T	151_Y	0.520	0.99
127_L	137_L	0.519	0.99
19_M	243_E	0.518	0.99
145_D	149_A	0.518	0.99
54_K	61_G	0.515	0.99
77_A	87_M	0.514	0.99
197_G	226_V	0.514	0.99
122_A	126_A	0.513	0.99
33_G	250_I	0.510	0.99
99_R	210_R	0.508	0.99
121_G	125_L	0.508	0.99
61_G	134_E	0.508	0.99
36_P	78_M	0.508	0.99
201_E	204_S	0.506	0.99
232_I	258_G	0.505	0.99
129_M	135_G	0.503	0.99
196_V	227_D	0.501	0.99
234_Q	237_A	0.501	0.99
158_I	278_I	0.500	0.99
210_R	215_E	0.500	0.99

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
2v03A	2	0.967	100	0.122	Contact Map
2pqmA	2	0.9967	100	0.129	Contact Map
1y7lA	2	0.9571	100	0.14	Contact Map
4ofxA	2	0.9241	100	0.142	Contact Map
3tbhA	2	0.9802	100	0.145	Contact Map
3dwgA	2	0.9967	100	0.146	Contact Map
3x44A	3	0.9934	100	0.146	Contact Map
2q3bA	2	0.9472	100	0.146	Contact Map
4lmbA	2	0.9703	100	0.149	Contact Map
4aecA	2	1	100	0.15	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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