Q9HND6 - HALSA - GREMLIN Contacts

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Q9HND6 - Membrane protein

UniProt:	Q9HND6	Sequences: MRVQANSRSMGVLEDKARARTFYKYLSKVYDRVNTFIWTEEMRAEALSMLDIDAEDRVLDVGCGTGFGTEGLLKHTEHVYGLDQSPHQLTKAWEKFGKHDPVAFHFGDAERLPFKPDSFDVVWSSGSIEYWPHPVQGLRELRRVAKPGSQVLVVGPDYPASTVFRKLADAIMLFYDEDEADRMFREAGYEEIQHRVLRKEPNSPPAIVTVARAPAADD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	218 (181)
Sequences:	24428 (17962)
Seq/√Len:	1335.1

ECOLI - UBIG UBIE SMTA BIOC YJHP CMOA TAM CMOB TEHB YAFE RLMA CFA YAFS
BACSU - YCGJ MENG YODH YXBB YRRT YBAJ YRHH YDAC YQEM YXJB
HALSA - Q9HND6 Q9HMT2 Q9HR81 Q9HRX3 Q9HR63 Q9HQ85 ARSM Q9HSK6
SULSO - Q7LXN7 Q97ZU8 Q97WT7 Q97X57 Q97WN4 Q97WH3 Q97YX4 Q97XD7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
57_R	78_H	3.010	1.00
86_P	106_F	2.850	1.00
63_C	81_G	2.735	1.00
142_R	189_Y	2.707	1.00
80_Y	119_F	2.592	1.00
135_V	186_E	2.458	1.00
62_G	127_S	2.363	1.00
140_E	143_R	2.262	1.00
92_A	104_F	2.250	1.00
59_L	119_F	2.248	1.00
82_L	107_G	2.189	1.00
141_L	151_V	2.182	1.00
120_D	146_K	2.179	1.00
89_L	104_F	2.136	1.00
69_T	79_V	2.105	1.00
145_A	149_S	2.094	1.00
80_Y	105_H	2.076	1.00
122_V	141_L	1.989	1.00
86_P	90_T	1.980	1.00
74_K	99_H	1.975	1.00
78_H	103_A	1.968	1.00
89_L	106_F	1.956	1.00
114_F	119_F	1.921	1.00
24_K	85_S	1.837	1.00
91_K	94_E	1.808	1.00
56_D	121_V	1.789	1.00
70_E	96_F	1.784	1.00
134_P	183_M	1.778	1.00
135_V	139_R	1.762	1.00
61_V	141_L	1.745	1.00
53_D	56_D	1.697	1.00
96_F	104_F	1.684	1.00
181_D	185_R	1.656	1.00
57_R	80_Y	1.651	1.00
24_K	87_H	1.645	1.00
122_V	145_A	1.642	1.00
83_D	89_L	1.640	1.00
140_E	144_V	1.631	1.00
34_N	37_I	1.624	1.00
61_V	109_A	1.618	1.00
133_H	136_Q	1.567	1.00
135_V	183_M	1.549	1.00
145_A	151_V	1.531	1.00
58_V	72_L	1.530	1.00
70_E	95_K	1.527	1.00
87_H	90_T	1.482	1.00
63_C	69_T	1.469	1.00
58_V	121_V	1.468	1.00
84_Q	108_D	1.465	1.00
89_L	93_W	1.456	1.00
57_R	146_K	1.445	1.00
57_R	120_D	1.424	1.00
69_T	81_G	1.415	1.00
80_Y	103_A	1.413	1.00
182_R	186_E	1.408	1.00
124_S	127_S	1.377	1.00
176_D	179_E	1.342	1.00
116_P	143_R	1.323	1.00
57_R	119_F	1.313	1.00
71_G	74_K	1.307	1.00
107_G	113_P	1.293	1.00
127_S	131_W	1.282	1.00
138_L	184_F	1.269	1.00
31_D	95_K	1.256	1.00
136_Q	139_R	1.239	1.00
109_A	127_S	1.230	1.00
131_W	137_G	1.209	1.00
108_D	111_R	1.209	1.00
145_A	189_Y	1.177	1.00
73_L	101_P	1.172	1.00
31_D	65_T	1.160	1.00
129_E	155_G	1.152	1.00
105_H	114_F	1.137	1.00
90_T	93_W	1.128	1.00
59_L	122_V	1.102	1.00
96_F	102_V	1.082	1.00
55_E	77_E	1.075	1.00
135_V	187_A	1.072	1.00
71_G	75_H	1.064	1.00
115_K	118_S	1.062	1.00
57_R	118_S	1.061	1.00
181_D	194_H	1.051	1.00
126_G	129_E	1.047	1.00
122_V	144_V	1.046	1.00
62_G	124_S	1.046	1.00
113_P	140_E	1.046	1.00
44_A	48_S	1.030	1.00
142_R	187_A	1.016	1.00
82_L	112_L	1.016	1.00
137_G	141_L	1.007	1.00
110_E	133_H	1.006	1.00
182_R	185_R	1.003	1.00
63_C	92_A	0.998	1.00
70_E	99_H	0.987	1.00
56_D	77_E	0.987	1.00
94_E	98_K	0.983	1.00
81_G	104_F	0.982	1.00
112_L	140_E	0.969	1.00
45_E	48_S	0.961	1.00
46_A	152_L	0.950	1.00
93_W	97_G	0.950	1.00
126_G	130_Y	0.944	1.00
49_M	195_R	0.942	1.00
60_D	63_C	0.937	1.00
70_E	74_K	0.936	1.00
68_G	125_S	0.935	1.00
82_L	105_H	0.933	1.00
39_T	42_M	0.932	1.00
85_S	88_Q	0.932	1.00
167_L	170_A	0.927	1.00
23_Y	130_Y	0.917	1.00
39_T	43_R	0.914	1.00
139_R	187_A	0.913	1.00
168_A	171_I	0.907	1.00
90_T	94_E	0.904	1.00
109_A	131_W	0.894	1.00
81_G	92_A	0.894	1.00
47_L	75_H	0.893	1.00
112_L	144_V	0.887	1.00
41_E	44_A	0.884	1.00
45_E	49_M	0.874	1.00
128_I	131_W	0.868	1.00
58_V	123_W	0.866	1.00
68_G	123_W	0.864	1.00
179_E	182_R	0.863	1.00
44_A	71_G	0.861	1.00
126_G	156_P	0.860	1.00
83_D	88_Q	0.856	1.00
23_Y	129_E	0.854	1.00
38_W	42_M	0.853	1.00
134_P	175_Y	0.843	1.00
166_K	170_A	0.836	1.00
65_T	88_Q	0.835	1.00
80_Y	114_F	0.832	1.00
56_D	120_D	0.827	1.00
118_S	146_K	0.824	1.00
94_E	97_G	0.823	1.00
69_T	102_V	0.818	1.00
91_K	95_K	0.816	1.00
97_G	100_D	0.810	1.00
114_F	144_V	0.805	1.00
130_Y	155_G	0.803	1.00
125_S	154_V	0.798	1.00
58_V	79_V	0.797	1.00
162_T	166_K	0.797	1.00
29_V	32_R	0.795	1.00
67_F	71_G	0.794	1.00
139_R	143_R	0.789	1.00
52_I	56_D	0.788	1.00
40_E	44_A	0.788	1.00
111_R	136_Q	0.781	1.00
126_G	154_V	0.778	1.00
69_T	104_F	0.768	1.00
59_L	144_V	0.762	1.00
163_V	171_I	0.751	1.00
141_L	145_A	0.747	1.00
87_H	91_K	0.746	1.00
45_E	195_R	0.743	1.00
129_E	156_P	0.738	1.00
136_Q	140_E	0.738	1.00
172_M	175_Y	0.736	1.00
128_I	138_L	0.735	1.00
138_L	187_A	0.734	1.00
20_R	24_K	0.731	1.00
38_W	41_E	0.729	1.00
66_G	92_A	0.728	1.00
63_C	83_D	0.728	1.00
28_K	91_K	0.725	1.00
72_L	123_W	0.722	1.00
161_S	165_R	0.718	1.00
107_G	112_L	0.717	1.00
21_T	25_Y	0.714	1.00
95_K	99_H	0.710	1.00
49_M	193_Q	0.695	1.00
177_E	181_D	0.693	1.00
164_F	168_A	0.693	1.00
44_A	75_H	0.691	1.00
27_S	88_Q	0.691	1.00
177_E	196_V	0.689	1.00
121_V	150_Q	0.689	1.00
164_F	170_A	0.688	1.00
183_M	187_A	0.682	1.00
93_W	103_A	0.680	1.00
121_V	149_S	0.672	1.00
128_I	137_G	0.669	1.00
167_L	171_I	0.669	1.00
163_V	169_D	0.668	1.00
96_F	100_D	0.667	1.00
128_I	153_V	0.667	1.00
138_L	180_A	0.664	1.00
43_R	47_L	0.660	1.00
20_R	106_F	0.659	1.00
151_V	184_F	0.658	1.00
95_K	98_K	0.648	1.00
29_V	33_V	0.646	1.00
57_R	77_E	0.646	1.00
166_K	169_D	0.642	1.00
42_M	46_A	0.640	1.00
57_R	117_D	0.638	1.00
67_F	95_K	0.638	1.00
161_S	164_F	0.634	1.00
24_K	86_P	0.631	1.00
58_V	77_E	0.626	1.00
66_G	104_F	0.624	1.00
62_G	84_Q	0.621	1.00
155_G	180_A	0.620	1.00
191_E	194_H	0.615	1.00
61_V	82_L	0.615	1.00
96_F	99_H	0.608	1.00
162_T	165_R	0.607	1.00
20_R	84_Q	0.606	1.00
158_Y	176_D	0.603	1.00
40_E	43_R	0.603	1.00
116_P	144_V	0.602	1.00
42_M	45_E	0.595	1.00
128_I	155_G	0.594	1.00
39_T	46_A	0.593	1.00
70_E	73_L	0.593	1.00
164_F	169_D	0.591	1.00
65_T	95_K	0.590	1.00
61_V	122_V	0.589	1.00
165_R	168_A	0.588	1.00
119_F	144_V	0.584	1.00
124_S	131_W	0.579	1.00
112_L	119_F	0.579	1.00
86_P	93_W	0.578	1.00
19_A	23_Y	0.576	1.00
48_S	75_H	0.575	1.00
157_D	196_V	0.573	1.00
60_D	130_Y	0.571	1.00
63_C	104_F	0.570	1.00
76_T	79_V	0.569	1.00
114_F	118_S	0.567	1.00
93_W	104_F	0.564	1.00
163_V	167_L	0.560	1.00
60_D	123_W	0.559	1.00
138_L	183_M	0.559	1.00
73_L	102_V	0.558	1.00
178_D	181_D	0.553	1.00
43_R	46_A	0.549	1.00
110_E	137_G	0.541	1.00
178_D	182_R	0.541	1.00
116_P	140_E	0.540	1.00
28_K	87_H	0.540	1.00
84_Q	106_F	0.536	1.00
31_D	91_K	0.535	1.00
63_C	89_L	0.535	1.00
124_S	153_V	0.529	1.00
53_D	77_E	0.529	1.00
88_Q	126_G	0.529	1.00
156_P	172_M	0.525	1.00
68_G	72_L	0.524	1.00
151_V	189_Y	0.524	1.00
60_D	79_V	0.524	1.00
117_D	146_K	0.519	1.00
89_L	92_A	0.517	1.00
124_S	141_L	0.515	1.00
60_D	81_G	0.514	1.00
160_A	163_V	0.514	1.00
184_F	187_A	0.513	1.00
163_V	170_A	0.512	1.00
161_S	166_K	0.510	1.00
60_D	82_L	0.508	1.00
117_D	147_P	0.506	1.00
118_S	144_V	0.506	1.00
51_D	150_Q	0.505	1.00
93_W	96_F	0.505	1.00
183_M	186_E	0.505	1.00
111_R	140_E	0.505	1.00
163_V	168_A	0.502	1.00
40_E	71_G	0.502	1.00
70_E	104_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
4pneA	2	0.9725	100	0.368	Contact Map
4obxA	2	0.8532	100	0.373	Contact Map
2o57A	2	0.9495	100	0.39	Contact Map
3ujcA	1	0.922	100	0.397	Contact Map
3busA	1	0.8532	100	0.398	Contact Map
3bkxA	2	0.9174	100	0.398	Contact Map
1vl5A	1	0.8211	100	0.401	Contact Map
1xxlA	1	0.8257	100	0.401	Contact Map
3hemA	2	0.9404	100	0.401	Contact Map
3l8dA	2	0.8303	100	0.401	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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