Q9HHU4 - HALSA - GREMLIN Contacts

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Q9HHU4 - Vng6223c

UniProt:	Q9HHU4	Sequences: MPQLKRFVIAGGGQVGLQAAGNLSSLGHDVVLIEPDEQRVAELSDAYVGPVIHGDATRPSILTQADLDDADAIAALTDDTSANLAICMEAQHLNPAIQTLARADTQCNEEYEEVVDATLLPKYLGGDYAADMLTGEDVRTLVYPTSDLDIIEISVAESAPVAGRRLDEIALPEGSLLISTADREHLAGPEMVLEPERRYVLAVEADVADEVRDLMRG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	217 (204)
Sequences:	8756 (6224)
Seq/√Len:	435.7

ECOLI - TRKA
BACSU - KTRC KTRA YJBQ YUGO
HALSA - Q9HHU4 Q9HHU8 Q9HNV8 Q9HSL4 Q9HHY1 Q9HQ83 Q9HHS7 Q9HNK1 Q9HRN5
SULSO - Q97XI3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
54_G	61_I	3.686	1.00
155_V	193_L	3.467	1.00
182_D	197_R	3.282	1.00
8_V	70_A	3.134	1.00
10_A	56_A	3.125	1.00
73_I	90_A	3.038	1.00
180_T	191_M	2.715	1.00
37_E	53_H	2.687	1.00
56_A	86_I	2.604	1.00
182_D	194_E	2.582	1.00
167_D	190_E	2.581	1.00
9_I	20_A	2.350	1.00
165_R	168_E	2.322	1.00
204_E	207_V	2.294	1.00
87_C	115_V	2.186	1.00
157_E	195_P	2.171	1.00
63_T	68_D	2.152	1.00
182_D	191_M	2.074	1.00
66_D	69_D	1.988	1.00
40_V	51_V	1.981	1.00
164_R	168_E	1.943	1.00
6_R	29_D	1.935	1.00
87_C	101_A	1.907	1.00
8_V	67_L	1.838	1.00
73_I	86_I	1.838	1.00
109_E	120_L	1.835	1.00
8_V	73_I	1.805	1.00
165_R	192_V	1.791	1.00
37_E	41_A	1.785	1.00
10_A	73_I	1.750	1.00
94_N	97_I	1.725	1.00
166_L	177_L	1.723	1.00
91_Q	116_D	1.707	1.00
163_G	194_E	1.703	1.00
174_G	207_V	1.699	1.00
162_A	195_P	1.698	1.00
13_G	16_G	1.696	1.00
34_E	40_V	1.679	1.00
91_Q	99_T	1.669	1.00
12_G	32_L	1.547	1.00
75_A	90_A	1.537	1.00
20_A	47_Y	1.526	1.00
163_G	195_P	1.503	1.00
59_P	63_T	1.497	1.00
75_A	83_N	1.477	1.00
152_E	198_R	1.468	1.00
19_A	74_A	1.467	1.00
39_R	42_E	1.460	1.00
73_I	97_I	1.445	1.00
7_F	72_A	1.437	1.00
87_C	99_T	1.417	1.00
167_D	189_P	1.411	1.00
34_E	51_V	1.390	1.00
63_T	93_L	1.385	1.00
188_G	191_M	1.382	1.00
65_A	70_A	1.374	1.00
24_S	49_G	1.335	1.00
17_L	43_L	1.327	1.00
152_E	200_V	1.319	1.00
12_G	43_L	1.314	1.00
54_G	65_A	1.275	1.00
10_A	86_I	1.272	1.00
60_S	63_T	1.264	1.00
177_L	201_L	1.256	1.00
52_I	65_A	1.254	1.00
32_L	47_Y	1.242	1.00
98_Q	117_A	1.232	1.00
98_Q	116_D	1.223	1.00
161_V	169_I	1.222	1.00
42_E	46_A	1.190	1.00
36_D	39_R	1.190	1.00
170_A	173_E	1.185	1.00
75_A	87_C	1.175	1.00
13_G	102_R	1.173	1.00
31_V	70_A	1.168	1.00
172_P	176_L	1.162	1.00
16_G	76_L	1.152	1.00
77_T	86_I	1.147	1.00
138_V	141_L	1.143	1.00
154_S	198_R	1.133	1.00
10_A	33_I	1.131	1.00
109_E	112_E	1.122	1.00
194_E	197_R	1.115	1.00
193_L	199_Y	1.114	1.00
203_V	208_A	1.101	1.00
82_A	86_I	1.091	1.00
126_G	130_A	1.084	1.00
19_A	76_L	1.079	1.00
154_S	196_E	1.074	1.00
59_P	89_E	1.069	1.00
92_H	113_E	1.065	1.00
67_L	94_N	1.054	1.00
20_A	32_L	1.049	1.00
21_G	46_A	1.048	1.00
207_V	210_E	1.042	1.00
12_G	40_V	1.024	1.00
149_D	205_A	1.023	1.00
111_Y	114_V	1.019	1.00
33_I	65_A	1.003	1.00
162_A	194_E	0.999	1.00
175_S	203_V	0.994	1.00
115_V	118_T	0.989	1.00
106_Q	123_Y	0.985	1.00
99_T	116_D	0.981	1.00
60_S	64_Q	0.981	1.00
180_T	197_R	0.978	1.00
12_G	34_E	0.977	1.00
148_L	202_A	0.972	1.00
77_T	82_A	0.970	1.00
52_I	61_I	0.967	1.00
19_A	126_G	0.961	1.00
203_V	207_V	0.958	1.00
61_I	65_A	0.957	1.00
181_A	198_R	0.954	1.00
33_I	54_G	0.951	1.00
101_A	115_V	0.929	1.00
33_I	61_I	0.927	1.00
47_Y	51_V	0.926	1.00
43_L	47_Y	0.920	1.00
9_I	16_G	0.917	1.00
12_G	17_L	0.915	1.00
13_G	34_E	0.914	1.00
187_A	191_M	0.909	1.00
43_L	46_A	0.902	1.00
155_V	162_A	0.901	1.00
8_V	65_A	0.899	1.00
182_D	185_H	0.898	1.00
161_V	211_V	0.897	1.00
153_I	201_L	0.885	1.00
18_Q	21_G	0.882	1.00
169_I	193_L	0.877	1.00
7_F	74_A	0.876	1.00
43_L	51_V	0.875	1.00
140_T	143_Y	0.871	1.00
16_G	34_E	0.867	1.00
15_V	102_R	0.865	1.00
165_R	190_E	0.863	1.00
6_R	70_A	0.862	1.00
201_L	211_V	0.853	1.00
34_E	39_R	0.845	1.00
99_T	115_V	0.840	1.00
28_H	71_D	0.840	1.00
73_I	95_P	0.838	1.00
38_Q	41_A	0.834	1.00
16_G	20_A	0.832	1.00
9_I	19_A	0.826	1.00
80_T	83_N	0.823	1.00
117_A	132_M	0.821	1.00
24_S	30_V	0.815	1.00
76_L	102_R	0.811	1.00
167_D	188_G	0.811	1.00
124_L	128_Y	0.811	1.00
183_R	194_E	0.809	1.00
41_A	45_D	0.807	1.00
7_F	28_H	0.805	1.00
72_A	98_Q	0.803	1.00
28_H	134_T	0.802	1.00
179_S	200_V	0.802	1.00
17_L	21_G	0.797	1.00
150_I	178_I	0.795	1.00
103_A	111_Y	0.795	1.00
139_R	143_Y	0.793	1.00
81_S	85_A	0.789	1.00
88_M	92_H	0.784	1.00
6_R	31_V	0.782	1.00
163_G	192_V	0.780	1.00
164_R	169_I	0.777	1.00
62_L	93_L	0.776	1.00
24_S	48_V	0.774	1.00
31_V	65_A	0.773	1.00
67_L	93_L	0.771	1.00
38_Q	42_E	0.771	1.00
175_S	211_V	0.764	1.00
62_L	67_L	0.763	1.00
13_G	56_A	0.755	1.00
59_P	93_L	0.744	1.00
72_A	100_L	0.742	1.00
31_V	52_I	0.740	1.00
165_R	169_I	0.739	1.00
112_E	117_A	0.736	1.00
171_L	177_L	0.735	1.00
6_R	71_D	0.727	1.00
90_A	94_N	0.724	1.00
6_R	69_D	0.724	1.00
22_N	26_L	0.722	1.00
32_L	49_G	0.721	1.00
176_L	189_P	0.721	1.00
34_E	53_H	0.720	1.00
18_Q	22_N	0.720	1.00
128_Y	132_M	0.720	1.00
178_I	202_A	0.714	1.00
9_I	30_V	0.712	1.00
123_Y	127_D	0.712	1.00
18_Q	126_G	0.711	1.00
67_L	70_A	0.706	1.00
209_D	212_R	0.703	1.00
77_T	83_N	0.698	1.00
79_D	82_A	0.697	1.00
168_E	192_V	0.694	1.00
88_M	124_L	0.687	1.00
109_E	123_Y	0.687	1.00
191_M	194_E	0.684	1.00
156_A	195_P	0.682	1.00
147_D	204_E	0.681	1.00
166_L	187_A	0.680	1.00
16_G	102_R	0.676	1.00
23_L	30_V	0.666	1.00
92_H	110_E	0.665	1.00
9_I	32_L	0.664	1.00
50_P	53_H	0.664	1.00
24_S	46_A	0.661	1.00
57_T	82_A	0.659	1.00
174_G	204_E	0.658	1.00
186_L	189_P	0.651	0.99
62_L	65_A	0.649	0.99
127_D	131_D	0.645	0.99
40_V	53_H	0.644	0.99
58_R	61_I	0.644	0.99
35_P	55_D	0.642	0.99
8_V	31_V	0.640	0.99
208_A	212_R	0.638	0.99
41_A	44_S	0.637	0.99
15_V	76_L	0.636	0.99
83_N	108_N	0.633	0.99
138_V	152_E	0.631	0.99
166_L	189_P	0.631	0.99
88_M	114_V	0.631	0.99
44_S	52_I	0.627	0.99
63_T	67_L	0.625	0.99
124_L	127_D	0.619	0.99
16_G	56_A	0.619	0.99
22_N	25_S	0.615	0.99
89_E	93_L	0.611	0.99
17_L	47_Y	0.611	0.99
141_L	203_V	0.610	0.99
17_L	42_E	0.610	0.99
44_S	51_V	0.605	0.99
22_N	126_G	0.604	0.99
73_I	99_T	0.603	0.99
106_Q	109_E	0.599	0.99
181_A	200_V	0.599	0.99
171_L	175_S	0.597	0.99
81_S	105_T	0.597	0.99
32_L	43_L	0.597	0.99
83_N	101_A	0.597	0.99
33_I	52_I	0.596	0.99
21_G	25_S	0.592	0.99
20_A	49_G	0.591	0.99
70_A	73_I	0.590	0.99
44_S	47_Y	0.590	0.99
12_G	16_G	0.590	0.99
75_A	86_I	0.588	0.99
21_G	24_S	0.587	0.99
17_L	46_A	0.586	0.99
80_T	104_D	0.584	0.99
75_A	99_T	0.581	0.99
20_A	30_V	0.576	0.99
104_D	122_K	0.575	0.99
180_T	187_A	0.574	0.99
166_L	171_L	0.572	0.99
67_L	73_I	0.567	0.99
201_L	208_A	0.567	0.99
162_A	193_L	0.565	0.99
81_S	84_L	0.558	0.98
161_V	199_Y	0.549	0.98
67_L	90_A	0.549	0.98
105_T	108_N	0.547	0.98
166_L	193_L	0.543	0.98
34_E	56_A	0.542	0.98
168_E	190_E	0.540	0.98
8_V	54_G	0.538	0.98
172_P	189_P	0.537	0.98
80_T	125_G	0.537	0.98
13_G	77_T	0.535	0.98
68_D	93_L	0.534	0.98
23_L	26_L	0.534	0.98
58_R	107_C	0.534	0.98
115_V	119_L	0.533	0.98
59_P	92_H	0.532	0.98
142_V	149_D	0.532	0.98
31_V	50_P	0.531	0.98
17_L	39_R	0.531	0.98
56_A	62_L	0.531	0.98
91_Q	115_V	0.528	0.98
171_L	211_V	0.527	0.98
123_Y	126_G	0.527	0.98
86_I	90_A	0.527	0.98
8_V	33_I	0.524	0.98
30_V	49_G	0.523	0.98
135_G	138_V	0.521	0.98
7_F	133_L	0.519	0.97
151_I	203_V	0.518	0.97
12_G	20_A	0.516	0.97
63_T	66_D	0.515	0.97
15_V	19_A	0.515	0.97
140_T	144_P	0.511	0.97
55_D	58_R	0.511	0.97
7_F	23_L	0.510	0.97
156_A	160_P	0.508	0.97
24_S	47_Y	0.506	0.97
104_D	108_N	0.506	0.97
43_L	49_G	0.506	0.97
81_S	108_N	0.502	0.97
89_E	107_C	0.502	0.97
10_A	75_A	0.500	0.97
141_L	144_P	0.500	0.97

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
4g65A	2	0.9908	100	0.275	Contact Map
2aefA	2	0.9631	100	0.285	Contact Map
4gx0A	3	0.9539	100	0.287	Contact Map
1lnqA	6	0.9631	100	0.289	Contact Map
3mt5A	5	0.9493	100	0.317	Contact Map
3l4bC	2	0.977	100	0.335	Contact Map
3nafA	3	0.9862	100	0.342	Contact Map
4hpfA	3	0.9217	100	0.381	Contact Map
4j91A	3	0.9539	100	0.404	Contact Map
3l9wA	2	0.8341	99.9	0.563	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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