Q9HMR8 - HALSA - GREMLIN Contacts

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Q9HMR8 - Signal sequence peptidase

UniProt:	Q9HMR8	Sequences: MTGDDVPDPTDGPRAAVRWFWSTDRADVLFVRDALSSLLVVSMVGLLLFSVSGVWPPLVAVESGSMQPNLQKGDLVFVTEEHRLSPEYASGGTGVVPHRTATAHGYEKIGGTGDVIVYEPDGNSRAVPIIHRARFWVDNEENWYDRADESIVAADSCSELRNCPAPHAGFITKGDNNRSNNYYDQSAGLSEPVKPGWVRGTAEYRVPFAGWVRLVISGEATVARPGGAALGGERALGQA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	239 (198)
Sequences:	124 (98)
Seq/√Len:	7.0

HALSA - Q9HMR8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
40_V	44_V	4.069	0.96
19_W	23_T	3.000	0.83
72_K	211_W	2.746	0.77
39_L	199_R	2.466	0.69
33_D	118_Y	2.282	0.63
148_D	189_L	2.219	0.60
168_A	192_P	2.177	0.59
148_D	151_I	2.169	0.58
61_V	76_V	2.122	0.57
105_G	138_D	2.101	0.56
77_F	170_F	2.021	0.53
146_R	206_V	1.969	0.51
144_Y	192_P	1.966	0.51
151_I	160_L	1.947	0.50
129_I	171_I	1.946	0.50
87_E	92_G	1.879	0.47
67_Q	110_G	1.835	0.46
52_S	77_F	1.833	0.46
118_Y	189_L	1.829	0.45
101_A	208_F	1.791	0.44
150_S	199_R	1.775	0.43
116_I	121_D	1.706	0.41
60_A	213_R	1.681	0.40
61_V	218_G	1.678	0.40
157_C	164_P	1.675	0.40
28_V	108_K	1.674	0.40
70_L	206_V	1.661	0.39
124_S	198_V	1.647	0.39
35_L	187_A	1.646	0.39
37_S	45_G	1.640	0.38
43_M	50_S	1.639	0.38
92_G	95_V	1.615	0.38
122_G	197_W	1.580	0.36
19_W	28_V	1.577	0.36
44_V	198_V	1.574	0.36
45_G	50_S	1.572	0.36
68_P	213_R	1.559	0.36
33_D	201_T	1.557	0.35
20_F	70_L	1.549	0.35
21_W	61_V	1.547	0.35
123_N	127_V	1.546	0.35
143_W	164_P	1.537	0.35
95_V	170_F	1.533	0.35
145_D	198_V	1.525	0.34
114_D	201_T	1.520	0.34
79_T	201_T	1.478	0.33
117_V	205_R	1.471	0.32
44_V	76_V	1.456	0.32
143_W	163_C	1.455	0.32
23_T	28_V	1.449	0.32
40_V	43_M	1.409	0.30
57_P	213_R	1.408	0.30
34_A	92_G	1.401	0.30
38_L	70_L	1.385	0.30
144_Y	162_N	1.373	0.29
68_P	83_R	1.368	0.29
93_T	170_F	1.367	0.29
147_A	164_P	1.356	0.29
187_A	194_K	1.336	0.28
44_V	204_Y	1.328	0.28
79_T	127_V	1.325	0.28
144_Y	154_A	1.318	0.28
144_Y	168_A	1.306	0.27
135_F	143_W	1.303	0.27
23_T	81_E	1.300	0.27
162_N	168_A	1.295	0.27
88_Y	91_G	1.283	0.27
106_Y	176_N	1.282	0.26
30_F	129_I	1.281	0.26
98_H	112_T	1.280	0.26
68_P	165_A	1.271	0.26
77_F	200_G	1.268	0.26
122_G	200_G	1.266	0.26
41_V	137_V	1.264	0.26
43_M	139_N	1.242	0.25
147_A	157_C	1.240	0.25
121_D	127_V	1.239	0.25
133_A	192_P	1.236	0.25
24_D	161_R	1.231	0.25
79_T	203_E	1.224	0.25
89_A	140_E	1.218	0.25
114_D	127_V	1.215	0.25
29_L	129_I	1.206	0.24
82_H	85_S	1.206	0.24
171_I	192_P	1.198	0.24
34_A	91_G	1.197	0.24
161_R	188_G	1.189	0.24
114_D	121_D	1.182	0.24
51_V	195_P	1.178	0.23
101_A	159_E	1.176	0.23
130_I	214_L	1.170	0.23
158_S	161_R	1.161	0.23
58_L	121_D	1.161	0.23
97_P	102_T	1.154	0.23
71_Q	212_V	1.148	0.23
77_F	116_I	1.148	0.23
40_V	204_Y	1.143	0.23
83_R	197_W	1.143	0.23
121_D	203_E	1.131	0.22
31_V	124_S	1.103	0.21
76_V	196_G	1.097	0.21
36_S	58_L	1.095	0.21
143_W	183_Y	1.084	0.21
59_V	200_G	1.084	0.21
99_R	104_H	1.081	0.21
51_V	109_I	1.072	0.21
108_K	152_V	1.071	0.21
86_P	114_D	1.060	0.20
142_N	183_Y	1.058	0.20
165_A	183_Y	1.047	0.20
157_C	163_C	1.044	0.20
38_L	103_A	1.035	0.20
43_M	95_V	1.033	0.20
154_A	160_L	1.023	0.19
79_T	119_E	1.018	0.19
49_F	52_S	1.013	0.19
20_F	212_V	1.002	0.19
134_R	192_P	0.986	0.19
144_Y	159_E	0.978	0.18
20_F	91_G	0.978	0.18
108_K	114_D	0.975	0.18
157_C	165_A	0.973	0.18
69_N	110_G	0.958	0.18
143_W	157_C	0.941	0.18
82_H	108_K	0.940	0.18
19_W	81_E	0.940	0.18
30_F	134_R	0.929	0.17
22_S	152_V	0.913	0.17
38_L	52_S	0.913	0.17
88_Y	104_H	0.908	0.17
190_S	201_T	0.908	0.17
50_S	195_P	0.905	0.17
49_F	59_V	0.904	0.17
35_L	38_L	0.901	0.17
52_S	136_W	0.892	0.17
48_L	130_I	0.881	0.16
108_K	170_F	0.870	0.16
111_G	187_A	0.866	0.16
77_F	133_A	0.863	0.16
88_Y	198_V	0.863	0.16
64_G	67_Q	0.861	0.16
29_L	39_L	0.861	0.16
27_D	116_I	0.859	0.16
61_V	129_I	0.858	0.16
33_D	114_D	0.857	0.16
127_V	208_F	0.856	0.16
159_E	162_N	0.855	0.16
26_A	86_P	0.852	0.16
83_R	165_A	0.852	0.16
110_G	194_K	0.842	0.16
51_V	70_L	0.840	0.15
85_S	118_Y	0.834	0.15
176_N	198_V	0.830	0.15
58_L	198_V	0.827	0.15
23_T	108_K	0.825	0.15
122_G	127_V	0.822	0.15
35_L	46_L	0.820	0.15
118_Y	192_P	0.817	0.15
123_N	171_I	0.814	0.15
23_T	199_R	0.804	0.15
20_F	35_L	0.799	0.15
61_V	110_G	0.799	0.15
43_M	76_V	0.790	0.14
42_S	196_G	0.790	0.14
139_N	198_V	0.789	0.14
163_C	213_R	0.788	0.14
60_A	68_P	0.786	0.14
127_V	215_V	0.784	0.14
78_V	199_R	0.777	0.14
37_S	200_G	0.770	0.14
61_V	64_G	0.770	0.14
170_F	200_G	0.770	0.14
111_G	121_D	0.766	0.14
62_E	78_V	0.763	0.14
100_T	170_F	0.760	0.14
150_S	182_Y	0.756	0.14
95_V	105_G	0.752	0.14
78_V	149_E	0.737	0.14
20_F	71_Q	0.735	0.13
26_A	208_F	0.734	0.13
30_F	33_D	0.734	0.13
81_E	86_P	0.728	0.13
181_N	194_K	0.724	0.13
26_A	148_D	0.722	0.13
68_P	137_V	0.718	0.13
81_E	114_D	0.717	0.13
71_Q	181_N	0.715	0.13
35_L	70_L	0.714	0.13
69_N	168_A	0.713	0.13
93_T	173_K	0.713	0.13
46_L	98_H	0.712	0.13
70_L	200_G	0.709	0.13
42_S	148_D	0.708	0.13
64_G	116_I	0.699	0.13
27_D	126_A	0.698	0.13
61_V	199_R	0.698	0.13
42_S	153_A	0.698	0.13
90_S	148_D	0.697	0.13
69_N	205_R	0.693	0.13
106_Y	128_P	0.687	0.13
89_A	100_T	0.687	0.13
134_R	199_R	0.682	0.13
36_S	78_V	0.680	0.13
24_D	176_N	0.679	0.13
60_A	77_F	0.677	0.12
74_D	184_D	0.676	0.12
60_A	209_A	0.674	0.12
70_L	109_I	0.673	0.12
94_G	143_W	0.669	0.12
29_L	176_N	0.667	0.12
98_H	156_S	0.662	0.12
164_P	213_R	0.658	0.12
21_W	110_G	0.657	0.12
47_L	141_E	0.657	0.12
69_N	198_V	0.654	0.12
78_V	189_L	0.650	0.12
104_H	138_D	0.647	0.12
134_R	173_K	0.647	0.12
54_V	206_V	0.645	0.12
28_V	198_V	0.643	0.12
78_V	206_V	0.642	0.12
211_W	216_I	0.642	0.12
114_D	126_A	0.637	0.12
92_G	212_V	0.635	0.12
69_N	189_L	0.635	0.12
29_L	106_Y	0.634	0.12
88_Y	111_G	0.633	0.12
27_D	105_G	0.632	0.12
114_D	203_E	0.632	0.12
29_L	80_E	0.632	0.12
72_K	134_R	0.628	0.12
182_Y	187_A	0.619	0.12
192_P	217_S	0.617	0.11
86_P	217_S	0.616	0.11
201_T	218_G	0.615	0.11
85_S	99_R	0.612	0.11
31_V	187_A	0.609	0.11
138_D	176_N	0.608	0.11
45_G	49_F	0.607	0.11
60_A	205_R	0.604	0.11
202_A	214_L	0.604	0.11
89_A	92_G	0.602	0.11
54_V	183_Y	0.602	0.11
83_R	128_P	0.600	0.11
47_L	212_V	0.598	0.11
23_T	112_T	0.598	0.11
147_A	163_C	0.598	0.11
141_E	166_P	0.593	0.11
135_F	163_C	0.592	0.11
56_P	177_N	0.592	0.11
76_V	85_S	0.586	0.11
39_L	201_T	0.584	0.11
90_S	118_Y	0.582	0.11
68_P	205_R	0.579	0.11
91_G	190_S	0.577	0.11
36_S	86_P	0.577	0.11
49_F	165_A	0.572	0.11
27_D	81_E	0.567	0.11
118_Y	190_S	0.567	0.11
21_W	38_L	0.558	0.11
93_T	133_A	0.556	0.11
151_I	194_K	0.556	0.11
118_Y	156_S	0.553	0.11
31_V	215_V	0.551	0.11
48_L	55_W	0.550	0.10
64_G	80_E	0.544	0.10
121_D	171_I	0.542	0.10
137_V	147_A	0.538	0.10
116_I	176_N	0.537	0.10
47_L	155_D	0.537	0.10
151_I	156_S	0.536	0.10
30_F	67_Q	0.535	0.10
189_L	192_P	0.534	0.10
58_L	192_P	0.533	0.10
110_G	201_T	0.533	0.10
75_L	81_E	0.531	0.10
94_G	163_C	0.531	0.10
151_I	181_N	0.529	0.10
110_G	139_N	0.529	0.10
26_A	70_L	0.526	0.10
86_P	156_S	0.526	0.10
154_A	192_P	0.523	0.10
88_Y	161_R	0.519	0.10
143_W	147_A	0.519	0.10
55_W	64_G	0.518	0.10
93_T	206_V	0.518	0.10
33_D	218_G	0.515	0.10
143_W	165_A	0.515	0.10
159_E	176_N	0.514	0.10
51_V	78_V	0.513	0.10
156_S	160_L	0.510	0.10
92_G	206_V	0.510	0.10
23_T	201_T	0.507	0.10
37_S	109_I	0.506	0.10
55_W	60_A	0.502	0.10
83_R	137_V	0.500	0.10
144_Y	160_L	0.500	0.10

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
4n31A	5	0.5356	99.3	0.86	Contact Map
4nv4A	2	0.3808	99.3	0.861	Contact Map
4me8A	1	0.3766	99.2	0.867	Contact Map
4k8wA	2	0.431	99.2	0.868	Contact Map
1b12A	1	0.636	98.2	0.905	Contact Map
1umuA	2	0.4184	35.4	0.966	Contact Map
2hnfA	1	0.5188	24.8	0.968	Contact Map
1kcaA	6	0.3389	24	0.968	Contact Map
3k2zA	2	0.5314	11.9	0.972	Contact Map
1jhfA	2	0.5272	6.6	0.976	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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