Q9HMK6 - HALSA - GREMLIN Contacts

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Q9HMK6 - Uncharacterized protein

UniProt:	Q9HMK6	Sequences: MDRPRIALVNAAHEPGETARNFRRELDAELVEFHAKGGRVPGHTEFDGVVVTGSKSSVYWDEPWIEALCDYVEDVHAAGVPVLGVCFGHQVLAEALGGTVEDMSGFELGYRTVERVADDPLFEGLPESMTAFTTHGDVVTELPAAATLLAENDYGIHAFRVGQSVGVQFHPEYDTETAERIATEKDVSEARRDAVLAGITPEAYAAACETKRLFENFTRQLGRGTDGGAEN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	231 (185)
Sequences:	11035 (7421)
Seq/√Len:	545.6

ECOLI - GUAA PABA TRPGD
BACSU - GUAA PABA
HALSA - Q9HMK6 TRPG GUAAA
SULSO - Q97X97 GUAAA TRPG

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
93_A	139_V	3.292	1.00
101_E	140_T	3.032	1.00
99_T	141_E	2.792	1.00
92_L	165_V	2.608	1.00
59_Y	94_E	2.513	1.00
149_L	160_R	2.450	1.00
93_A	159_F	2.439	1.00
119_D	160_R	2.392	1.00
148_L	156_I	2.376	1.00
147_T	160_R	2.340	1.00
99_T	140_T	2.271	1.00
126_P	178_A	2.241	1.00
23_R	50_V	2.237	1.00
25_E	180_R	2.234	1.00
69_C	94_E	2.197	1.00
178_A	181_I	2.185	1.00
112_T	128_S	2.155	1.00
69_C	95_A	2.070	1.00
73_E	95_A	1.981	1.00
51_V	68_L	1.972	1.00
150_A	158_A	1.931	1.00
8_L	20_R	1.913	1.00
147_T	162_G	1.903	1.00
31_V	46_F	1.835	1.00
148_L	151_E	1.817	1.00
93_A	98_G	1.784	1.00
116_V	151_E	1.780	1.00
72_V	91_V	1.775	1.00
161_V	164_S	1.740	1.00
114_E	128_S	1.736	1.00
139_V	159_F	1.733	1.00
48_G	188_S	1.711	1.00
89_H	166_G	1.683	1.00
129_M	178_A	1.675	1.00
112_T	130_T	1.671	1.00
122_F	158_A	1.639	1.00
130_T	177_T	1.631	1.00
39_R	42_G	1.629	1.00
70_D	73_E	1.603	1.00
181_I	184_E	1.603	1.00
114_E	151_E	1.570	1.00
6_I	48_G	1.569	1.00
19_A	85_V	1.551	1.00
57_S	60_W	1.518	1.00
73_E	77_A	1.500	1.00
33_F	38_G	1.485	1.00
54_S	87_F	1.484	1.00
22_F	180_R	1.474	1.00
93_A	143_P	1.470	1.00
7_A	33_F	1.436	1.00
125_L	129_M	1.431	1.00
89_H	139_V	1.414	1.00
142_L	148_L	1.406	1.00
159_F	166_G	1.395	1.00
5_R	44_T	1.391	1.00
111_R	132_F	1.384	1.00
119_D	149_L	1.384	1.00
123_E	186_D	1.319	1.00
34_H	37_G	1.311	1.00
20_R	24_R	1.294	1.00
89_H	159_F	1.289	1.00
96_L	165_V	1.284	1.00
49_V	71_Y	1.279	1.00
74_D	78_A	1.278	1.00
83_L	167_V	1.264	1.00
92_L	166_G	1.253	1.00
149_L	158_A	1.245	1.00
117_A	147_T	1.244	1.00
58_V	94_E	1.239	1.00
146_A	159_F	1.226	1.00
38_G	43_H	1.215	1.00
142_L	156_I	1.210	1.00
59_Y	137_D	1.206	1.00
5_R	31_V	1.193	1.00
70_D	74_D	1.185	1.00
129_M	182_A	1.177	1.00
5_R	47_D	1.168	1.00
146_A	161_V	1.166	1.00
85_V	167_V	1.162	1.00
56_S	60_W	1.157	1.00
11_A	51_V	1.134	1.00
101_E	138_V	1.125	1.00
151_E	155_G	1.100	1.00
69_C	73_E	1.090	1.00
31_V	44_T	1.087	1.00
57_S	137_D	1.085	1.00
120_P	160_R	1.082	1.00
132_F	175_T	1.079	1.00
106_F	136_G	1.070	1.00
72_V	82_V	1.069	1.00
38_G	41_P	1.061	1.00
49_V	80_V	1.060	1.00
19_A	183_T	1.060	1.00
98_G	143_P	1.058	1.00
145_A	162_G	1.057	1.00
69_C	91_V	1.052	1.00
145_A	163_Q	1.032	1.00
122_F	169_F	1.023	1.00
117_A	149_L	1.008	1.00
126_P	129_M	1.005	1.00
186_D	189_E	1.002	1.00
38_G	42_G	1.000	1.00
74_D	77_A	0.986	1.00
40_V	43_H	0.977	1.00
103_M	138_V	0.976	1.00
145_A	161_V	0.975	1.00
21_N	24_R	0.972	1.00
107_E	152_N	0.941	1.00
50_V	83_L	0.939	1.00
11_A	35_A	0.937	1.00
111_R	130_T	0.894	1.00
12_A	36_K	0.890	1.00
113_V	130_T	0.888	1.00
102_D	106_F	0.887	1.00
41_P	74_D	0.883	1.00
22_F	25_E	0.875	1.00
75_V	80_V	0.871	1.00
46_F	80_V	0.869	1.00
27_D	30_L	0.848	1.00
48_G	81_P	0.847	1.00
113_V	150_A	0.842	1.00
118_D	127_E	0.840	1.00
189_E	193_D	0.830	1.00
38_G	44_T	0.829	1.00
126_P	177_T	0.824	1.00
86_C	90_Q	0.818	1.00
119_D	147_T	0.815	1.00
43_H	46_F	0.813	1.00
82_V	92_L	0.813	1.00
102_D	105_G	0.811	1.00
98_G	141_E	0.810	1.00
8_L	23_R	0.808	1.00
8_L	50_V	0.803	1.00
39_R	43_H	0.801	1.00
49_V	82_V	0.801	1.00
77_A	165_V	0.794	1.00
5_R	29_E	0.787	1.00
101_E	141_E	0.786	1.00
17_E	20_R	0.783	1.00
12_A	34_H	0.782	1.00
16_G	32_E	0.775	1.00
76_H	96_L	0.775	1.00
169_F	182_A	0.772	1.00
187_V	190_A	0.770	1.00
96_L	161_V	0.770	1.00
23_R	28_A	0.764	1.00
186_D	190_A	0.762	1.00
100_V	137_D	0.761	1.00
68_L	91_V	0.760	1.00
143_P	159_F	0.758	1.00
86_C	170_H	0.757	1.00
189_E	192_R	0.754	1.00
114_E	153_D	0.754	1.00
125_L	178_A	0.749	1.00
115_R	127_E	0.745	1.00
188_S	192_R	0.743	1.00
47_D	190_A	0.736	1.00
131_A	176_E	0.735	1.00
71_Y	76_H	0.734	1.00
21_N	25_E	0.731	1.00
114_E	131_A	0.728	1.00
111_R	133_T	0.727	1.00
59_Y	69_C	0.720	1.00
26_L	183_T	0.719	1.00
37_G	40_V	0.718	1.00
56_S	59_Y	0.717	1.00
179_E	183_T	0.716	1.00
26_L	180_R	0.714	1.00
108_L	134_T	0.713	1.00
70_D	95_A	0.710	1.00
110_Y	132_F	0.706	1.00
72_V	92_L	0.705	1.00
138_V	155_G	0.696	1.00
7_A	43_H	0.691	1.00
71_Y	91_V	0.690	1.00
57_S	102_D	0.688	1.00
72_V	95_A	0.684	1.00
125_L	181_I	0.681	1.00
90_Q	168_Q	0.681	1.00
105_G	154_Y	0.678	1.00
19_A	52_T	0.678	1.00
133_T	157_H	0.676	1.00
113_V	128_S	0.676	1.00
6_I	28_A	0.675	1.00
51_V	82_V	0.675	1.00
107_E	157_H	0.675	1.00
61_D	69_C	0.673	1.00
167_V	171_P	0.668	1.00
117_A	160_R	0.666	1.00
76_H	82_V	0.665	1.00
92_L	164_S	0.661	1.00
108_L	136_G	0.655	1.00
24_R	30_L	0.651	1.00
98_G	139_V	0.651	1.00
94_E	99_T	0.650	1.00
141_E	144_A	0.645	1.00
49_V	75_V	0.641	1.00
177_T	180_R	0.638	1.00
113_V	153_D	0.636	1.00
188_S	191_R	0.635	1.00
84_G	88_G	0.631	1.00
187_V	192_R	0.631	1.00
7_A	10_N	0.628	1.00
6_I	23_R	0.627	1.00
175_T	179_E	0.625	1.00
20_R	32_E	0.624	1.00
186_D	191_R	0.623	1.00
115_R	153_D	0.622	1.00
26_L	184_E	0.621	1.00
180_R	184_E	0.621	1.00
112_T	115_R	0.620	1.00
115_R	128_S	0.620	1.00
114_E	127_E	0.618	1.00
36_K	40_V	0.613	1.00
33_F	42_G	0.613	1.00
94_E	100_V	0.610	1.00
22_F	183_T	0.606	1.00
10_N	16_G	0.600	1.00
63_P	70_D	0.596	1.00
77_A	96_L	0.596	1.00
131_A	169_F	0.591	1.00
96_L	146_A	0.590	1.00
181_I	185_K	0.588	1.00
19_A	23_R	0.588	1.00
63_P	71_Y	0.588	1.00
187_V	191_R	0.587	1.00
116_V	120_P	0.585	1.00
115_R	151_E	0.583	0.99
89_H	93_A	0.582	0.99
122_F	150_A	0.582	0.99
37_G	41_P	0.580	0.99
103_M	106_F	0.577	0.99
76_H	92_L	0.571	0.99
138_V	156_I	0.569	0.99
7_A	38_G	0.569	0.99
142_L	146_A	0.564	0.99
36_K	41_P	0.563	0.99
104_S	138_V	0.560	0.99
91_V	95_A	0.557	0.99
132_F	173_Y	0.555	0.99
107_E	110_Y	0.555	0.99
7_A	46_F	0.551	0.99
107_E	135_H	0.550	0.99
36_K	39_R	0.549	0.99
118_D	123_E	0.547	0.99
156_I	159_F	0.544	0.99
35_A	62_E	0.543	0.99
125_L	185_K	0.542	0.99
44_T	80_V	0.540	0.99
60_W	63_P	0.539	0.99
33_F	37_G	0.538	0.99
115_R	129_M	0.535	0.99
57_S	94_E	0.535	0.99
190_A	193_D	0.534	0.99
113_V	169_F	0.533	0.99
8_L	16_G	0.533	0.99
84_G	92_L	0.533	0.99
184_E	192_R	0.532	0.99
74_D	79_G	0.531	0.99
124_G	181_I	0.531	0.99
16_G	52_T	0.525	0.99
112_T	116_V	0.522	0.99
113_V	131_A	0.519	0.99
119_D	122_F	0.516	0.99
178_A	182_A	0.515	0.99
23_R	183_T	0.515	0.99
28_A	48_G	0.514	0.99
52_T	136_G	0.511	0.99
5_R	46_F	0.510	0.99
75_V	82_V	0.508	0.99
116_V	128_S	0.507	0.99
129_M	177_T	0.504	0.99
117_A	151_E	0.503	0.99
40_V	63_P	0.503	0.99
20_R	30_L	0.502	0.98
43_H	71_Y	0.502	0.98
5_R	45_E	0.500	0.98
120_P	164_S	0.500	0.98

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
3m3pA	1	0.987	100	0.366	Contact Map
1o1yA	2	0.9524	100	0.377	Contact Map
3tqiA	3	0.9134	100	0.385	Contact Map
1gpmA	3	0.974	100	0.387	Contact Map
3l7nA	1	0.9524	100	0.393	Contact Map
3uowA	2	0.974	100	0.399	Contact Map
2ywbA	4	0.9351	100	0.406	Contact Map
2vxoA	2	0.9567	100	0.409	Contact Map
3r75A	2	0.8268	100	0.427	Contact Map
2vpiA	1	0.7706	100	0.445	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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