Q9HNQ9 - HALSA - GREMLIN Contacts

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Q9HNQ9 - Protein-export membrane protein SecF

UniProt:	Q9HNQ9	Sequences: MSWFEVPDVDLSQYSMRQLVAPPLAVLVVALAVIGGWMAATGAPVSPGIEFTGGSEVVAQSSAPSAQVKAAFDAEPTSFRSVGTNGNRYLATFQSENAPGISGDTADIEIVQSQEVSPTFGSSTQGLALLGVAAAFLGMSVLVFALFRTFVPSIAVVVSAFSDIVVPVALMNVFEIKLSLGTVAALLMLIGYSVDSDILLNNHVLRRSGGFWESVDRAMNTGVTMTLTSIAAMVVMTIVSYIFGITLMSSIGLVLVMGLVTDLMNTYMLNVTLLRWYKFEGVAK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	284 (264)
Sequences:	52905 (38346)
Seq/√Len:	2360.0

ECOLI - SECF MDTC CUSA ACRD MDTF MDTB SECD ACRB
BACSU - SECDF YDFJ SWRC
HALSA - Q9HNQ9 Q9HPT7 Q9HNR0
SULSO - Q97ZV9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
69_K	73_D	2.781	1.00
71_A	75_E	2.775	1.00
170_L	257_M	2.722	1.00
98_A	102_S	2.699	1.00
215_V	219_M	2.574	1.00
21_A	24_L	2.542	1.00
97_N	102_S	2.541	1.00
94_Q	97_N	2.453	1.00
216_D	219_M	2.389	1.00
208_S	213_E	2.324	1.00
166_V	261_T	2.271	1.00
97_N	100_G	2.222	1.00
152_P	206_R	2.168	1.00
215_V	218_A	2.118	1.00
37_W	41_T	2.108	1.00
95_S	99_P	2.041	1.00
99_P	102_S	2.038	1.00
234_V	256_V	2.018	1.00
65_S	68_V	2.007	1.00
234_V	260_V	2.006	1.00
82_V	87_N	1.990	1.00
214_S	217_R	1.954	1.00
94_Q	102_S	1.953	1.00
208_S	211_F	1.927	1.00
67_Q	71_A	1.843	1.00
26_V	276_W	1.842	1.00
38_M	41_T	1.837	1.00
222_G	225_M	1.834	1.00
17_R	20_V	1.821	1.00
82_V	93_F	1.806	1.00
66_A	69_K	1.805	1.00
68_V	71_A	1.799	1.00
65_S	69_K	1.792	1.00
94_Q	98_A	1.764	1.00
38_M	42_G	1.759	1.00
42_G	172_N	1.724	1.00
230_I	263_L	1.724	1.00
189_L	258_G	1.714	1.00
82_V	89_Y	1.700	1.00
68_V	75_E	1.695	1.00
196_S	230_I	1.687	1.00
49_I	56_E	1.683	1.00
206_R	210_G	1.678	1.00
77_T	80_R	1.678	1.00
66_A	70_A	1.674	1.00
96_E	100_G	1.658	1.00
82_V	86_G	1.635	1.00
87_N	93_F	1.631	1.00
133_A	137_L	1.627	1.00
126_G	130_L	1.623	1.00
129_L	133_A	1.618	1.00
140_S	153_S	1.614	1.00
72_F	75_E	1.612	1.00
118_P	122_S	1.609	1.00
130_L	134_A	1.592	1.00
126_G	129_L	1.586	1.00
174_F	253_L	1.584	1.00
203_H	221_T	1.575	1.00
16_M	216_D	1.561	1.00
70_A	73_D	1.558	1.00
213_E	217_R	1.540	1.00
17_R	21_A	1.532	1.00
71_A	74_A	1.524	1.00
65_S	75_E	1.516	1.00
22_P	275_R	1.484	1.00
211_F	214_S	1.448	1.00
171_M	254_V	1.441	1.00
16_M	20_V	1.436	1.00
52_T	56_E	1.433	1.00
83_G	88_R	1.433	1.00
99_P	103_G	1.426	1.00
95_S	102_S	1.408	1.00
95_S	98_A	1.404	1.00
70_A	74_A	1.397	1.00
140_S	157_V	1.392	1.00
246_T	249_S	1.388	1.00
87_N	91_A	1.371	1.00
22_P	276_W	1.370	1.00
83_G	87_N	1.370	1.00
227_L	263_L	1.367	1.00
144_F	153_S	1.364	1.00
193_S	262_D	1.362	1.00
203_H	207_R	1.359	1.00
82_V	85_N	1.359	1.00
98_A	101_I	1.357	1.00
89_Y	93_F	1.352	1.00
81_S	85_N	1.337	1.00
18_Q	25_A	1.335	1.00
76_P	80_R	1.309	1.00
262_D	266_T	1.307	1.00
88_R	92_T	1.303	1.00
39_A	42_G	1.293	1.00
67_Q	70_A	1.290	1.00
203_H	208_S	1.288	1.00
24_L	27_L	1.285	1.00
130_L	133_A	1.284	1.00
226_T	230_I	1.249	1.00
110_I	113_S	1.238	1.00
97_N	101_I	1.234	1.00
174_F	257_M	1.222	1.00
65_S	71_A	1.222	1.00
241_Y	256_V	1.203	1.00
23_P	276_W	1.201	1.00
69_K	75_E	1.188	1.00
100_G	104_D	1.187	1.00
76_P	79_F	1.175	1.00
31_L	35_G	1.160	1.00
196_S	229_S	1.156	1.00
216_D	275_R	1.151	1.00
116_V	119_T	1.148	1.00
241_Y	253_L	1.146	1.00
84_T	87_N	1.141	1.00
88_R	91_A	1.139	1.00
94_Q	99_P	1.133	1.00
222_G	230_I	1.127	1.00
204_V	274_L	1.125	1.00
96_E	99_P	1.113	1.00
122_S	126_G	1.107	1.00
137_L	141_V	1.101	1.00
49_I	60_Q	1.101	1.00
34_I	38_M	1.097	1.00
225_M	229_S	1.097	1.00
20_V	216_D	1.095	1.00
57_V	60_Q	1.091	1.00
225_M	230_I	1.090	1.00
263_L	267_Y	1.083	1.00
56_E	59_A	1.083	1.00
106_A	109_E	1.082	1.00
127_L	130_L	1.082	1.00
171_M	182_T	1.073	1.00
49_I	58_V	1.063	1.00
212_W	216_D	1.057	1.00
35_G	38_M	1.050	1.00
26_V	30_A	1.049	1.00
19_L	275_R	1.046	1.00
81_S	84_T	1.041	1.00
82_V	92_T	1.036	1.00
46_S	177_K	1.027	1.00
52_T	55_S	1.025	1.00
223_V	227_L	1.021	1.00
169_A	172_N	1.020	1.00
238_I	256_V	1.019	1.00
119_T	123_S	1.018	1.00
23_P	27_L	1.016	1.00
176_I	253_L	1.015	1.00
227_L	231_A	1.009	1.00
100_G	103_G	1.009	1.00
35_G	39_A	1.006	1.00
45_V	48_G	1.003	1.00
83_G	86_G	1.002	1.00
167_P	258_G	0.992	1.00
210_G	213_E	0.969	1.00
86_G	93_F	0.967	1.00
84_T	93_F	0.964	1.00
49_I	52_T	0.964	1.00
233_M	259_L	0.955	1.00
82_V	90_L	0.954	1.00
272_T	275_R	0.954	1.00
162_S	265_N	0.953	1.00
120_F	123_S	0.943	1.00
155_A	273_L	0.927	1.00
39_A	172_N	0.924	1.00
217_R	220_N	0.923	1.00
208_S	214_S	0.920	1.00
55_S	60_Q	0.920	1.00
109_E	112_Q	0.917	1.00
208_S	221_T	0.912	1.00
29_V	269_L	0.911	1.00
140_S	144_F	0.907	1.00
73_D	76_P	0.898	1.00
51_F	54_G	0.897	1.00
208_S	212_W	0.893	1.00
15_S	19_L	0.890	1.00
84_T	89_Y	0.889	1.00
249_S	253_L	0.887	1.00
176_I	250_S	0.887	1.00
224_T	228_T	0.886	1.00
52_T	58_V	0.884	1.00
81_S	88_R	0.884	1.00
274_L	278_K	0.884	1.00
139_M	194_V	0.883	1.00
30_A	34_I	0.882	1.00
85_N	88_R	0.880	1.00
60_Q	63_A	0.878	1.00
39_A	169_A	0.878	1.00
86_G	89_Y	0.877	1.00
20_V	212_W	0.869	1.00
33_V	37_W	0.867	1.00
69_K	74_A	0.860	1.00
71_A	76_P	0.859	1.00
50_E	53_G	0.854	1.00
197_D	270_N	0.850	1.00
53_G	59_A	0.848	1.00
207_R	211_F	0.847	1.00
179_S	182_T	0.842	1.00
88_R	93_F	0.837	1.00
49_I	53_G	0.835	1.00
253_L	257_M	0.831	1.00
113_S	116_V	0.830	1.00
256_V	260_V	0.827	1.00
94_Q	100_G	0.827	1.00
225_M	228_T	0.826	1.00
155_A	277_Y	0.826	1.00
59_A	62_S	0.822	1.00
27_L	31_L	0.820	1.00
108_I	111_V	0.820	1.00
222_G	226_T	0.820	1.00
36_G	39_A	0.815	1.00
212_W	215_V	0.811	1.00
149_T	152_P	0.809	1.00
237_T	256_V	0.806	1.00
170_L	174_F	0.803	1.00
86_G	90_L	0.802	1.00
28_V	35_G	0.802	1.00
90_L	93_F	0.797	1.00
166_V	265_N	0.796	1.00
106_A	110_I	0.795	1.00
51_F	55_S	0.795	1.00
74_A	78_S	0.794	1.00
222_G	229_S	0.794	1.00
220_N	224_T	0.792	1.00
33_V	166_V	0.791	1.00
221_T	225_M	0.789	1.00
134_A	138_G	0.786	1.00
209_G	214_S	0.783	1.00
83_G	92_T	0.782	1.00
25_A	29_V	0.780	1.00
178_L	182_T	0.778	1.00
176_I	249_S	0.777	1.00
19_L	272_T	0.777	1.00
179_S	250_S	0.767	1.00
29_V	162_S	0.765	1.00
83_G	90_L	0.762	1.00
51_F	59_A	0.760	1.00
87_N	92_T	0.758	1.00
27_L	34_I	0.755	1.00
85_N	89_Y	0.754	1.00
112_Q	115_E	0.751	1.00
28_V	32_A	0.739	1.00
109_E	116_V	0.738	1.00
69_K	72_F	0.738	1.00
171_M	176_I	0.738	1.00
185_A	255_L	0.729	1.00
82_V	88_R	0.728	1.00
84_T	88_R	0.721	1.00
107_D	110_I	0.720	1.00
56_E	60_Q	0.717	1.00
122_S	125_Q	0.714	1.00
24_L	28_V	0.712	1.00
155_A	270_N	0.712	1.00
50_E	54_G	0.712	1.00
230_I	259_L	0.710	1.00
118_P	121_G	0.710	1.00
85_N	93_F	0.708	1.00
75_E	78_S	0.707	1.00
106_A	112_Q	0.706	1.00
112_Q	116_V	0.705	1.00
98_A	104_D	0.697	1.00
65_S	73_D	0.696	1.00
163_D	167_P	0.694	1.00
159_S	270_N	0.694	1.00
81_S	86_G	0.691	1.00
23_P	26_V	0.690	1.00
170_L	261_T	0.690	1.00
223_V	267_Y	0.682	1.00
272_T	276_W	0.680	1.00
153_S	156_V	0.678	1.00
227_L	230_I	0.678	1.00
152_P	278_K	0.676	1.00
17_R	25_A	0.676	1.00
144_F	148_R	0.673	1.00
115_E	119_T	0.670	1.00
108_I	112_Q	0.670	1.00
207_R	210_G	0.670	1.00
53_G	56_E	0.669	1.00
48_G	53_G	0.667	1.00
74_A	80_R	0.667	1.00
150_F	153_S	0.666	1.00
82_V	91_A	0.662	1.00
125_Q	129_L	0.660	1.00
85_N	90_L	0.660	1.00
20_V	23_P	0.658	1.00
209_G	212_W	0.658	1.00
68_V	79_F	0.657	1.00
39_A	173_V	0.656	1.00
41_T	44_P	0.655	1.00
44_P	47_P	0.655	1.00
39_A	43_A	0.652	1.00
237_T	255_L	0.650	1.00
101_I	104_D	0.647	1.00
49_I	55_S	0.645	1.00
159_S	265_N	0.645	1.00
134_A	137_L	0.643	1.00
57_V	62_S	0.638	1.00
25_A	28_V	0.637	1.00
81_S	87_N	0.636	1.00
215_V	275_R	0.635	1.00
86_G	92_T	0.634	1.00
222_G	228_T	0.633	1.00
101_I	105_T	0.632	1.00
31_L	34_I	0.630	1.00
49_I	54_G	0.628	1.00
169_A	173_V	0.627	1.00
200_L	226_T	0.619	1.00
95_S	101_I	0.619	1.00
135_A	139_M	0.616	1.00
192_Y	196_S	0.616	1.00
89_Y	92_T	0.613	1.00
68_V	73_D	0.612	1.00
94_Q	101_I	0.611	1.00
73_D	80_R	0.610	1.00
87_N	90_L	0.609	1.00
67_Q	75_E	0.609	1.00
185_A	254_V	0.609	1.00
56_E	63_A	0.607	1.00
162_S	269_L	0.605	1.00
156_V	201_N	0.604	1.00
204_V	218_A	0.604	1.00
96_E	101_I	0.603	1.00
53_G	60_Q	0.602	1.00
192_Y	233_M	0.602	1.00
22_P	26_V	0.601	1.00
15_S	220_N	0.599	1.00
66_A	71_A	0.598	1.00
131_G	134_A	0.598	1.00
20_V	24_L	0.597	1.00
241_Y	249_S	0.597	1.00
18_Q	272_T	0.595	1.00
241_Y	252_G	0.595	1.00
68_V	72_F	0.594	1.00
167_P	171_M	0.587	1.00
217_R	221_T	0.586	1.00
33_V	165_V	0.584	1.00
33_V	36_G	0.583	1.00
34_I	37_W	0.581	1.00
119_T	122_S	0.580	1.00
71_A	77_T	0.579	1.00
238_I	241_Y	0.578	1.00
50_E	58_V	0.578	1.00
55_S	58_V	0.577	1.00
121_G	125_Q	0.574	1.00
123_S	126_G	0.574	1.00
212_W	275_R	0.573	1.00
209_G	213_E	0.571	1.00
85_N	92_T	0.571	1.00
216_D	220_N	0.567	1.00
53_G	58_V	0.566	1.00
65_S	72_F	0.563	1.00
44_P	48_G	0.562	1.00
181_G	247_L	0.561	1.00
51_F	56_E	0.560	1.00
68_V	74_A	0.557	1.00
81_S	92_T	0.554	1.00
53_G	57_V	0.554	1.00
165_V	169_A	0.554	1.00
182_T	250_S	0.553	1.00
81_S	90_L	0.551	1.00
65_S	74_A	0.551	1.00
209_G	278_K	0.550	1.00
96_E	102_S	0.550	1.00
214_S	218_A	0.550	1.00
111_V	116_V	0.545	1.00
158_V	161_F	0.545	1.00
40_A	43_A	0.542	1.00
65_S	78_S	0.540	1.00
111_V	114_Q	0.539	1.00
149_T	206_R	0.539	1.00
52_T	59_A	0.537	1.00
260_V	264_M	0.534	1.00
223_V	230_I	0.533	1.00
97_N	104_D	0.533	1.00
156_V	197_D	0.532	1.00
83_G	93_F	0.532	1.00
30_A	37_W	0.531	1.00
141_V	145_A	0.531	1.00
68_V	80_R	0.531	1.00
54_G	58_V	0.527	1.00
167_P	186_L	0.527	1.00
180_L	183_V	0.525	1.00
229_S	263_L	0.522	1.00
263_L	266_T	0.520	1.00
67_Q	73_D	0.519	1.00
191_G	195_D	0.519	1.00
55_S	59_A	0.518	1.00
17_R	216_D	0.516	1.00
16_M	220_N	0.516	1.00
28_V	31_L	0.515	1.00
81_S	102_S	0.514	1.00
50_E	55_S	0.513	1.00
170_L	253_L	0.512	1.00
81_S	93_F	0.511	1.00
106_A	111_V	0.510	1.00
86_G	91_A	0.505	1.00
192_Y	195_D	0.503	1.00
141_V	144_F	0.502	1.00
51_F	60_Q	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
3aqpA	1	0.9648	100	0.382	Contact Map
4k0jA	3	0.9437	100	0.385	Contact Map
3ne5A	3	0.9789	100	0.404	Contact Map
3w9iA	3	0.993	100	0.414	Contact Map
4dx5A	3	0.9965	100	0.415	Contact Map
4mt1A	3	0.9648	100	0.42	Contact Map
4or2A	2	0.7007	29.2	0.931	Contact Map
3qrxB	2	0.0704	10.2	0.944	Contact Map
4twkA	2	0.8134	9.8	0.945	Contact Map
2kluA	1	0.1303	9.6	0.945	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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