CUSR - ECOLI - GREMLIN Contacts

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CUSR - Transcriptional regulatory protein CusR

UniProt:	P0ACZ8	Sequences: MKLLIVEDEKKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMTGDYDLIILDIMLPDVNGWDIVRMLRSANKGMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRRGAAVIIESQFQVADLMVDLVSRKVTRSGTRITLTSKEFTLLEFFLRHQGEVLPRSLIASQVWDMNFDSDTNAIDVAVKRLRGKIDNDFEPKLIQTVRGVGYMLEVPDGQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13851
Length:	227 (206)
Sequences:	80843 (57659)
Seq/√Len:	4017.3

ECOLI - CUSR PHOP PHOB CREB YEDW QSEB BASR OMPR ARCA KDPE RSTA BAER CPXR TORR UVRY FIMZ NARP YHJB RCSB EVGA YJJQ DPIA NARL YGEK DCUR BGLJ CSGD UHPA RCSA TORS RCSC BARA RSSB ARCB YPDB EVGS YEHT CHEB NTRC GLRR ZRAR ATOC RCSD
BACSU - PHOP YKOG YVCP YXDJ YVRH BCER YCBL YCLJ YYCF CSSR YFIK CITT YRKP RESD YXJL LIAR CMPA DCTR MALR DEGU YVFU YHCZ YDFI YBDJ DESR YESN LYTT GLNL NATR SP0A CHEB CHEV SP0F CHEY CCDB
HALSA - Q9HR09 CHEB 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
13_G	29_L	3.847	1.00
13_G	31_D	3.401	1.00
17_T	29_L	3.345	1.00
6_V	36_G	2.843	1.00
37_Y	65_M	2.819	1.00
34_L	56_D	2.613	1.00
28_D	45_Y	2.558	1.00
33_G	57_V	2.471	1.00
41_M	69_A	2.467	1.00
57_V	65_M	2.409	1.00
32_N	56_D	2.361	1.00
19_G	105_F	2.111	1.00
30_A	39_L	2.092	1.00
23_A	109_L	2.069	1.00
2_K	26_V	2.060	1.00
17_T	21_T	2.026	1.00
53_M	81_L	1.978	1.00
31_D	35_N	1.918	1.00
87_R	107_E	1.860	1.00
63_V	75_I	1.856	1.00
189_N	192_D	1.855	1.00
50_L	62_I	1.852	1.00
28_D	39_L	1.818	1.00
77_L	90_G	1.806	1.00
2_K	28_D	1.787	1.00
39_L	43_G	1.770	1.00
32_N	35_N	1.769	1.00
65_M	69_A	1.768	1.00
28_D	43_G	1.731	1.00
4_L	30_A	1.712	1.00
67_R	96_D	1.686	1.00
77_L	95_A	1.660	1.00
154_K	157_T	1.644	1.00
84_I	104_A	1.644	1.00
64_R	93_L	1.639	1.00
57_V	61_D	1.636	1.00
172_R	192_D	1.623	1.00
33_G	62_I	1.593	1.00
58_N	61_D	1.578	1.00
97_D	111_R	1.572	1.00
160_E	164_R	1.568	1.00
39_L	42_T	1.542	1.00
65_M	68_S	1.497	1.00
20_L	112_V	1.496	1.00
40_A	66_L	1.487	1.00
81_L	86_H	1.467	1.00
170_L	178_Q	1.467	1.00
161_F	178_Q	1.463	1.00
48_I	73_M	1.452	1.00
171_P	174_L	1.448	1.00
34_L	57_V	1.433	1.00
194_A	197_R	1.432	1.00
63_V	77_L	1.430	1.00
61_D	64_R	1.360	1.00
37_Y	62_I	1.355	1.00
129_Q	134_M	1.353	1.00
96_D	118_R	1.341	1.00
47_L	112_V	1.332	1.00
96_D	115_L	1.329	1.00
39_L	45_Y	1.312	1.00
76_L	115_L	1.301	1.00
10_K	31_D	1.299	1.00
132_D	145_S	1.296	1.00
161_F	165_H	1.294	1.00
7_E	13_G	1.271	1.00
70_N	73_M	1.262	1.00
38_H	42_T	1.248	1.00
37_Y	57_V	1.238	1.00
52_I	60_W	1.236	1.00
6_V	54_L	1.220	1.00
60_W	90_G	1.218	1.00
156_F	160_E	1.212	1.00
25_F	113_R	1.206	1.00
8_D	51_D	1.202	1.00
35_N	39_L	1.194	1.00
35_N	38_H	1.192	1.00
4_L	45_Y	1.183	1.00
50_L	63_V	1.176	1.00
89_K	93_L	1.174	1.00
174_L	178_Q	1.167	1.00
155_E	201_K	1.167	1.00
109_L	113_R	1.153	1.00
34_L	38_H	1.150	1.00
30_A	36_G	1.142	1.00
52_I	77_L	1.129	1.00
60_W	89_K	1.126	1.00
83_T	86_H	1.120	1.00
190_A	194_A	1.115	1.00
195_V	199_R	1.113	1.00
2_K	43_G	1.110	1.00
4_L	36_G	1.105	1.00
23_A	113_R	1.080	1.00
24_G	113_R	1.079	1.00
4_L	39_L	1.070	1.00
84_I	88_V	1.070	1.00
157_T	160_E	1.057	1.00
110_A	114_T	1.057	1.00
204_N	213_T	1.057	1.00
134_M	143_T	1.050	1.00
189_N	193_V	1.048	1.00
37_Y	41_M	1.040	1.00
3_L	25_F	1.039	1.00
64_R	89_K	1.039	1.00
136_D	139_S	1.035	1.00
107_E	110_A	1.035	1.00
193_V	196_K	1.033	1.00
40_A	70_N	1.030	1.00
47_L	116_L	1.030	1.00
88_V	92_E	1.029	1.00
30_A	35_N	1.027	1.00
36_G	62_I	1.022	1.00
173_S	188_T	1.019	1.00
141_K	148_R	1.018	1.00
14_E	29_L	1.013	1.00
158_L	162_F	1.006	1.00
92_E	113_R	0.997	1.00
85_E	89_K	0.992	1.00
17_T	27_V	0.968	1.00
48_I	66_L	0.965	1.00
10_K	14_E	0.959	1.00
161_F	170_L	0.954	1.00
5_I	16_L	0.954	1.00
170_L	174_L	0.949	1.00
153_S	157_T	0.947	1.00
4_L	40_A	0.946	1.00
87_R	100_V	0.945	1.00
11_K	15_Y	0.940	1.00
135_V	163_L	0.939	1.00
36_G	40_A	0.939	1.00
6_V	30_A	0.923	1.00
137_L	160_E	0.920	1.00
50_L	75_I	0.919	1.00
60_W	93_L	0.917	1.00
52_I	58_N	0.911	1.00
48_I	75_I	0.907	1.00
16_L	78_L	0.906	1.00
84_I	87_R	0.903	1.00
74_P	96_D	0.901	1.00
63_V	93_L	0.899	1.00
38_H	41_M	0.899	1.00
63_V	95_A	0.894	1.00
154_K	180_W	0.887	1.00
6_V	48_I	0.884	1.00
61_D	65_M	0.882	1.00
89_K	92_E	0.880	1.00
50_L	77_L	0.877	1.00
76_L	111_R	0.877	1.00
14_E	17_T	0.870	1.00
49_I	108_L	0.864	1.00
127_Q	134_M	0.863	1.00
135_V	156_F	0.859	1.00
205_D	208_P	0.852	1.00
143_T	148_R	0.845	1.00
188_T	192_D	0.842	1.00
5_I	27_V	0.841	1.00
44_D	70_N	0.841	1.00
52_I	86_H	0.839	1.00
10_K	13_G	0.836	1.00
115_L	118_R	0.835	1.00
25_F	109_L	0.827	1.00
82_G	100_V	0.827	1.00
174_L	177_S	0.817	1.00
107_E	111_R	0.813	1.00
18_K	22_E	0.807	1.00
64_R	68_S	0.806	1.00
62_I	66_L	0.802	1.00
204_N	209_K	0.799	1.00
189_N	196_K	0.792	1.00
74_P	118_R	0.781	1.00
105_F	109_L	0.776	1.00
40_A	45_Y	0.776	1.00
161_F	175_I	0.774	1.00
54_L	62_I	0.771	1.00
57_V	62_I	0.768	1.00
114_T	117_R	0.767	1.00
173_S	177_S	0.760	1.00
104_A	107_E	0.754	1.00
52_I	81_L	0.754	1.00
86_H	89_K	0.753	1.00
49_I	112_V	0.753	1.00
33_G	37_Y	0.753	1.00
12_T	103_F	0.746	1.00
129_Q	132_D	0.744	1.00
40_A	73_M	0.740	1.00
41_M	70_N	0.739	1.00
88_V	106_A	0.734	1.00
193_V	197_R	0.733	1.00
74_P	122_V	0.732	1.00
205_D	209_K	0.730	1.00
66_L	71_K	0.729	1.00
161_F	164_R	0.728	1.00
197_R	200_G	0.725	1.00
16_L	108_L	0.725	1.00
78_L	103_F	0.725	1.00
66_L	75_I	0.725	1.00
49_I	78_L	0.723	1.00
172_R	188_T	0.721	1.00
203_D	209_K	0.719	1.00
103_F	108_L	0.718	1.00
6_V	62_I	0.716	1.00
53_M	80_A	0.713	1.00
14_E	18_K	0.713	1.00
143_T	146_G	0.711	1.00
33_G	56_D	0.710	1.00
85_E	106_A	0.709	1.00
97_D	114_T	0.705	1.00
116_L	119_G	0.705	1.00
119_G	123_I	0.698	1.00
186_S	191_I	0.697	1.00
114_T	119_G	0.690	1.00
41_M	65_M	0.678	1.00
106_A	110_A	0.674	1.00
157_T	161_F	0.670	1.00
5_I	17_T	0.669	1.00
196_K	200_G	0.667	1.00
72_G	122_V	0.665	1.00
128_F	131_A	0.664	1.00
140_R	157_T	0.663	1.00
37_Y	40_A	0.663	1.00
33_G	54_L	0.656	1.00
2_K	46_D	0.649	1.00
15_Y	19_G	0.649	1.00
111_R	115_L	0.648	1.00
40_A	48_I	0.646	1.00
67_R	74_P	0.646	1.00
13_G	17_T	0.641	1.00
152_T	201_K	0.641	1.00
19_G	109_L	0.640	1.00
49_I	76_L	0.640	1.00
51_D	101_K	0.639	1.00
5_I	29_L	0.635	1.00
126_S	129_Q	0.631	1.00
91_L	111_R	0.630	1.00
76_L	97_D	0.628	1.00
177_S	180_W	0.627	1.00
152_T	155_E	0.623	1.00
9_E	80_A	0.615	1.00
90_G	95_A	0.615	1.00
92_E	110_A	0.612	1.00
79_T	101_K	0.610	1.00
140_R	156_F	0.610	1.00
7_E	54_L	0.607	1.00
74_P	116_L	0.607	1.00
37_Y	69_A	0.605	1.00
9_E	12_T	0.605	1.00
164_R	178_Q	0.599	1.00
85_E	88_V	0.594	1.00
203_D	208_P	0.594	1.00
199_R	204_N	0.593	1.00
135_V	160_E	0.592	1.00
87_R	104_A	0.588	1.00
21_T	27_V	0.588	1.00
209_K	212_Q	0.588	1.00
208_P	211_I	0.587	1.00
63_V	67_R	0.587	1.00
67_R	73_M	0.586	1.00
60_W	86_H	0.586	1.00
162_F	165_H	0.583	1.00
126_S	138_V	0.583	1.00
192_D	195_V	0.582	1.00
103_F	107_E	0.576	1.00
110_A	113_R	0.575	1.00
20_L	25_F	0.569	1.00
176_A	180_W	0.566	1.00
164_R	170_L	0.565	1.00
113_R	117_R	0.565	1.00
190_A	195_V	0.563	1.00
84_I	106_A	0.561	1.00
154_K	194_A	0.558	1.00
165_H	178_Q	0.556	1.00
133_L	144_R	0.556	1.00
12_T	15_Y	0.555	1.00
50_L	54_L	0.554	1.00
3_L	20_L	0.550	1.00
74_P	119_G	0.549	1.00
187_D	190_A	0.548	1.00
151_L	155_E	0.547	1.00
66_L	73_M	0.546	1.00
191_I	195_V	0.546	1.00
72_G	121_A	0.544	1.00
135_V	142_V	0.543	1.00
208_P	212_Q	0.540	1.00
52_I	90_G	0.538	1.00
8_D	79_T	0.534	1.00
88_V	91_L	0.532	1.00
80_A	102_P	0.528	1.00
144_R	205_D	0.527	1.00
19_G	23_A	0.525	1.00
79_T	87_R	0.523	1.00
79_T	98_Y	0.520	1.00
208_P	216_G	0.519	1.00
35_N	56_D	0.516	1.00
15_Y	18_K	0.513	1.00
195_V	207_E	0.510	1.00
162_F	195_V	0.510	1.00
192_D	196_K	0.508	1.00
155_E	158_L	0.507	1.00
3_L	47_L	0.507	1.00
111_R	114_T	0.505	1.00
132_D	144_R	0.505	1.00
130_V	134_M	0.505	1.00
152_T	162_F	0.504	1.00
50_L	66_L	0.504	1.00
144_R	147_T	0.503	1.00
144_R	203_D	0.503	1.00
5_I	13_G	0.502	1.00
159_L	162_F	0.502	1.00
155_E	162_F	0.502	1.00
25_F	116_L	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
1ys7A	2	0.9824	100	0.188	Contact Map
3r0jA	2	0.9648	100	0.192	Contact Map
2gwrA	1	0.9692	100	0.2	Contact Map
1kgsA	1	0.9604	100	0.203	Contact Map
2oqrA	2	0.9736	100	0.22	Contact Map
2hqrA	2	0.9648	100	0.221	Contact Map
4b09A	2	0.9295	100	0.223	Contact Map
4kfcA	2	0.9736	100	0.226	Contact Map
1p2fA	1	0.9427	100	0.244	Contact Map
3q9sA	1	0.9207	100	0.247	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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