YEHT - ECOLI - GREMLIN Contacts

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YEHT - Transcriptional regulatory protein YehT

UniProt:	P0AFT5	Sequences: MIKVLIVDDEPLARENLRVFLQEQSDIEIVGECSNAVEGIGAVHKLRPDVLFLDIQMPRISGLEMVGMLDPEHRPYIVFLTAFDEYAIKAFEEHAFDYLLKPIDEARLEKTLARLRQERSKQDVSLLPENQQALKFIPCTGHSRIYLLQMKDVAFVSSRMSGVYVTSHEGKEGFTELTLRTLESRTPLLRCHRQYLVNLAHLQEIRLEDNGQAELILRNGLTVPVSRRYLKSLKEAIGL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12006
Length:	239 (200)
Sequences:	63212 (46796)
Seq/√Len:	3308.9

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
14_R	32_E	4.043	1.00
14_R	34_S	3.714	1.00
18_R	32_E	3.513	1.00
40_I	68_M	2.830	1.00
7_V	39_G	2.812	1.00
31_G	48_P	2.612	1.00
36_A	60_I	2.594	1.00
37_V	59_R	2.448	1.00
60_I	68_M	2.423	1.00
33_C	42_A	2.400	1.00
31_G	42_A	2.276	1.00
20_F	105_E	2.266	1.00
31_G	46_L	2.256	1.00
3_K	31_G	2.201	1.00
35_N	59_R	2.188	1.00
18_R	22_Q	2.070	1.00
3_K	28_E	2.069	1.00
87_A	107_R	2.062	1.00
79_F	95_A	2.016	1.00
24_Q	109_E	2.003	1.00
56_Q	83_F	1.966	1.00
66_V	77_I	1.944	1.00
42_A	46_L	1.902	1.00
53_L	65_M	1.848	1.00
97_D	111_T	1.816	1.00
136_F	149_Q	1.791	1.00
5_L	33_C	1.761	1.00
35_N	38_E	1.750	1.00
61_S	64_E	1.741	1.00
34_S	38_E	1.740	1.00
67_G	93_E	1.711	1.00
36_A	65_M	1.683	1.00
51_L	75_P	1.681	1.00
96_F	118_E	1.605	1.00
40_I	65_M	1.581	1.00
43_V	69_L	1.572	1.00
68_M	71_P	1.537	1.00
66_V	79_F	1.512	1.00
37_V	60_I	1.511	1.00
60_I	64_E	1.510	1.00
79_F	90_A	1.473	1.00
42_A	48_P	1.472	1.00
64_E	67_G	1.431	1.00
55_I	63_L	1.429	1.00
42_A	45_K	1.405	1.00
40_I	60_I	1.395	1.00
8_D	14_R	1.393	1.00
193_R	196_L	1.388	1.00
165_V	182_L	1.365	1.00
3_K	46_L	1.352	1.00
176_E	196_L	1.349	1.00
198_N	201_H	1.321	1.00
21_L	112_L	1.320	1.00
55_I	79_F	1.315	1.00
53_L	66_V	1.312	1.00
164_Y	168_H	1.310	1.00
11_P	34_S	1.301	1.00
33_C	39_G	1.296	1.00
96_F	115_L	1.269	1.00
70_D	96_F	1.268	1.00
7_V	57_M	1.257	1.00
138_P	147_L	1.236	1.00
83_F	86_Y	1.234	1.00
63_L	89_K	1.222	1.00
89_K	93_E	1.220	1.00
41_G	45_K	1.220	1.00
109_E	113_A	1.219	1.00
5_L	48_P	1.215	1.00
145_I	152_D	1.212	1.00
76_Y	118_E	1.203	1.00
9_D	54_D	1.201	1.00
4_V	27_I	1.194	1.00
63_L	90_A	1.191	1.00
50_V	112_L	1.190	1.00
92_E	113_A	1.188	1.00
67_G	89_K	1.169	1.00
141_G	164_Y	1.169	1.00
37_V	41_G	1.166	1.00
38_E	41_G	1.159	1.00
78_V	115_L	1.157	1.00
6_I	17_L	1.152	1.00
40_I	44_H	1.147	1.00
5_L	39_G	1.138	1.00
169_E	172_E	1.132	1.00
24_Q	113_A	1.112	1.00
140_T	143_S	1.111	1.00
87_A	100_L	1.108	1.00
147_L	152_D	1.106	1.00
178_T	182_L	1.104	1.00
28_E	31_G	1.103	1.00
39_G	65_M	1.095	1.00
11_P	15_E	1.092	1.00
38_E	42_A	1.061	1.00
76_Y	122_Q	1.055	1.00
39_G	43_V	1.054	1.00
158_S	161_S	1.038	1.00
33_C	38_E	1.038	1.00
51_L	69_L	1.036	1.00
78_V	111_T	1.017	1.00
51_L	77_I	1.017	1.00
55_I	61_S	1.004	1.00
175_T	178_T	1.002	1.00
52_F	108_L	1.002	1.00
66_V	93_E	0.975	1.00
5_L	42_A	0.970	1.00
44_H	72_E	0.959	1.00
170_G	174_F	0.958	1.00
97_D	114_R	0.958	1.00
27_I	113_A	0.956	1.00
84_D	100_L	0.953	1.00
92_E	110_K	0.951	1.00
64_E	68_M	0.950	1.00
17_L	108_L	0.947	1.00
7_V	51_L	0.945	1.00
89_K	92_E	0.944	1.00
181_T	185_R	0.944	1.00
15_E	32_E	0.939	1.00
107_R	111_T	0.937	1.00
80_L	103_I	0.934	1.00
85_E	89_K	0.930	1.00
88_I	92_E	0.928	1.00
72_E	75_P	0.927	1.00
197_V	200_A	0.926	1.00
139_C	167_S	0.925	1.00
12_L	16_N	0.919	1.00
110_K	114_R	0.919	1.00
158_S	184_S	0.918	1.00
65_M	69_L	0.909	1.00
76_Y	119_R	0.896	1.00
52_F	112_L	0.894	1.00
178_T	181_T	0.884	1.00
17_L	80_L	0.879	1.00
200_A	204_E	0.879	1.00
10_E	13_A	0.878	1.00
15_E	18_R	0.877	1.00
133_A	138_P	0.865	1.00
43_V	72_E	0.862	1.00
50_V	116_R	0.862	1.00
105_E	109_E	0.862	1.00
114_R	117_Q	0.858	1.00
119_R	123_D	0.857	1.00
15_E	19_V	0.856	1.00
57_M	65_M	0.853	1.00
41_G	44_H	0.848	1.00
67_G	71_P	0.846	1.00
180_R	184_S	0.844	1.00
13_A	103_I	0.843	1.00
16_N	20_F	0.839	1.00
11_P	14_R	0.837	1.00
63_L	93_E	0.832	1.00
5_L	43_V	0.828	1.00
3_K	48_P	0.824	1.00
53_L	77_I	0.824	1.00
52_F	80_L	0.820	1.00
55_I	86_Y	0.820	1.00
56_Q	82_A	0.813	1.00
139_C	160_M	0.813	1.00
19_V	23_E	0.812	1.00
165_V	174_F	0.812	1.00
107_R	110_K	0.811	1.00
69_L	77_I	0.805	1.00
36_A	40_I	0.804	1.00
177_L	181_T	0.801	1.00
53_L	79_F	0.798	1.00
8_D	57_M	0.797	1.00
74_R	122_Q	0.790	1.00
85_E	106_A	0.787	1.00
147_L	150_M	0.785	1.00
4_V	50_V	0.784	1.00
7_V	33_C	0.784	1.00
194_Q	198_N	0.781	1.00
76_Y	96_F	0.781	1.00
5_L	31_G	0.780	1.00
174_F	178_T	0.778	1.00
103_I	108_L	0.773	1.00
88_I	106_A	0.771	1.00
55_I	83_F	0.771	1.00
43_V	75_P	0.763	1.00
87_A	104_D	0.759	1.00
6_I	14_R	0.755	1.00
66_V	95_A	0.751	1.00
172_E	178_T	0.750	1.00
165_V	169_E	0.745	1.00
27_I	109_E	0.745	1.00
7_V	65_M	0.742	1.00
43_V	51_L	0.739	1.00
115_L	118_E	0.738	1.00
81_T	87_A	0.736	1.00
52_F	78_V	0.735	1.00
43_V	48_P	0.732	1.00
18_R	30_V	0.730	1.00
60_I	65_M	0.725	1.00
76_Y	115_L	0.722	1.00
20_F	109_E	0.720	1.00
136_F	148_L	0.714	1.00
33_C	36_A	0.711	1.00
144_R	161_S	0.706	1.00
118_E	122_Q	0.703	1.00
111_T	115_L	0.702	1.00
14_R	18_R	0.700	1.00
104_D	107_R	0.700	1.00
92_E	97_D	0.699	1.00
3_K	49_D	0.698	1.00
144_R	160_M	0.695	1.00
106_A	110_K	0.693	1.00
6_I	18_R	0.689	1.00
161_S	164_Y	0.673	1.00
85_E	88_I	0.672	1.00
119_R	122_Q	0.671	1.00
90_A	95_A	0.670	1.00
86_Y	89_K	0.669	1.00
116_R	119_R	0.667	1.00
113_A	117_Q	0.666	1.00
91_F	111_T	0.666	1.00
40_I	43_V	0.663	1.00
157_S	161_S	0.660	1.00
13_A	16_N	0.657	1.00
82_A	102_P	0.655	1.00
7_V	36_A	0.652	1.00
36_A	59_R	0.643	1.00
74_R	121_K	0.639	1.00
69_L	75_P	0.637	1.00
148_L	151_K	0.636	1.00
4_V	21_L	0.633	1.00
197_V	201_H	0.633	1.00
142_H	172_E	0.631	1.00
113_A	116_R	0.629	1.00
116_R	120_S	0.624	1.00
92_E	107_R	0.624	1.00
137_I	148_L	0.623	1.00
6_I	32_E	0.620	1.00
192_H	196_L	0.612	1.00
44_H	68_M	0.611	1.00
148_L	207_L	0.610	1.00
7_V	53_L	0.607	1.00
167_S	170_G	0.607	1.00
69_L	73_H	0.605	1.00
53_L	69_L	0.605	1.00
53_L	57_M	0.595	1.00
55_I	90_A	0.595	1.00
117_Q	120_S	0.583	1.00
165_V	179_L	0.583	1.00
6_I	30_V	0.581	1.00
140_T	145_I	0.581	1.00
110_K	113_A	0.580	1.00
20_F	24_Q	0.577	1.00
117_Q	121_K	0.575	1.00
43_V	73_H	0.573	1.00
141_G	168_H	0.573	1.00
114_R	118_E	0.572	1.00
43_V	65_M	0.572	1.00
91_F	95_A	0.572	1.00
17_L	103_I	0.571	1.00
21_L	27_I	0.568	1.00
202_L	206_R	0.566	1.00
96_F	111_T	0.565	1.00
112_L	116_R	0.564	1.00
27_I	116_R	0.563	1.00
88_I	91_F	0.562	1.00
70_D	75_P	0.562	1.00
11_P	32_E	0.559	1.00
191_C	194_Q	0.559	1.00
160_M	164_Y	0.558	1.00
121_K	124_V	0.557	1.00
199_L	203_Q	0.556	1.00
79_F	93_E	0.555	1.00
16_N	19_V	0.551	1.00
35_N	57_M	0.550	1.00
12_L	15_E	0.544	1.00
121_K	125_S	0.543	1.00
128_P	132_Q	0.540	1.00
139_C	146_Y	0.538	1.00
36_A	57_M	0.537	1.00
196_L	200_A	0.531	1.00
5_L	51_L	0.530	1.00
138_P	150_M	0.526	1.00
28_E	46_L	0.526	1.00
173_G	177_L	0.525	1.00
134_L	137_I	0.523	1.00
189_L	199_L	0.520	1.00
47_R	73_H	0.519	1.00
146_Y	153_V	0.518	1.00
133_A	136_F	0.517	1.00
112_L	115_L	0.515	1.00
193_R	197_V	0.515	1.00
159_R	205_I	0.515	1.00
173_G	176_E	0.513	1.00
134_L	167_S	0.513	1.00
201_H	204_E	0.512	1.00
24_Q	27_I	0.511	1.00
139_C	164_Y	0.510	1.00
78_V	97_D	0.508	1.00
176_E	180_R	0.505	1.00
23_E	105_E	0.504	1.00
120_S	123_D	0.503	1.00
177_L	192_H	0.503	1.00
66_V	70_D	0.501	1.00
188_L	191_C	0.501	1.00
50_V	115_L	0.500	1.00
4_V	52_F	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
4cbvA	2	0.954	100	0.308	Contact Map
4g97A	1	0.5356	100	0.378	Contact Map
3n0rA	1	0.5021	100	0.382	Contact Map
4kfcA	2	0.9163	100	0.385	Contact Map
1kgsA	1	0.8954	100	0.388	Contact Map
2oqrA	2	0.9247	99.9	0.392	Contact Map
1ys7A	2	0.9247	99.9	0.392	Contact Map
3r0jA	2	0.9038	99.9	0.394	Contact Map
3q9sA	1	0.8703	99.9	0.394	Contact Map
3breA	4	0.9916	99.9	0.398	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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