MNTD - BACSU - GREMLIN Contacts

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MNTD - Manganese transport system membrane protein MntD

UniProt:	O34500	Sequences: MSFEAWIIATGVLVGVSCGLIGTFLVLRSMAMLADAISHTVLLGIVGAFLVTGSLDGIYMFIGAAATGLLTAFLVQLLHSKGVQSDAAIGVVFTSLFAIGVILLSVYGANVHLDIEHSLMGEIAFVPWNTVTVFGVDIGPKAFWMLASVLVLNVVLISVCYKEFKIASFDPQMALALGIPVLLIHYVQMGMLSLTTVASFDSVGAVLVVAMLIVPPAAAHLLTDRLLYMLILSALIGGLSAVMGYFFATWLNVSISGAMAAMTGVCYASAFLFSPANGVITKKLRTLNMQKERAG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	295 (257)
Sequences:	5157 (3211)
Seq/√Len:	200.3

ECOLI - ZNUB
BACSU - MNTD MNTC ZNUB
HALSA - Q9HHR8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
222_L	270_A	4.238	1.00
11_G	241_A	3.927	1.00
144_W	148_S	3.719	1.00
240_S	266_C	3.239	1.00
95_S	264_G	2.921	1.00
243_M	262_M	2.904	1.00
240_S	263_T	2.786	1.00
225_R	228_Y	2.732	1.00
232_L	236_I	2.732	1.00
10_T	126_V	2.680	1.00
223_T	229_M	2.637	1.00
253_V	258_A	2.618	1.00
231_I	235_L	2.522	1.00
223_T	228_Y	2.437	1.00
13_L	150_L	2.423	1.00
12_V	238_G	2.355	1.00
218_A	236_I	2.285	1.00
156_L	187_V	2.265	1.00
218_A	270_A	2.242	1.00
223_T	232_L	2.201	1.00
180_P	183_L	2.126	1.00
13_L	147_A	2.119	1.00
87_A	217_A	2.105	1.00
224_D	228_Y	2.086	1.00
22_G	216_P	2.058	1.00
220_H	229_M	1.979	1.00
102_I	261_A	1.928	1.00
48_A	63_G	1.851	1.00
219_A	232_L	1.809	1.00
183_L	187_V	1.808	1.00
10_T	146_L	1.791	1.00
218_A	266_C	1.783	1.00
240_S	262_M	1.767	1.00
210_A	260_A	1.763	1.00
17_S	150_L	1.757	1.00
247_F	262_M	1.746	1.00
247_F	251_L	1.739	1.00
166_I	173_M	1.736	1.00
20_L	154_V	1.695	1.00
20_L	157_I	1.693	1.00
10_T	143_F	1.685	1.00
15_G	241_A	1.679	1.00
248_A	255_I	1.672	1.00
269_S	273_F	1.668	1.00
175_L	182_L	1.660	1.00
173_M	177_L	1.657	1.00
236_I	240_S	1.648	1.00
160_C	163_E	1.647	1.00
236_I	266_C	1.610	1.00
16_V	234_A	1.594	1.00
11_G	123_I	1.585	1.00
156_L	191_M	1.573	1.00
151_V	155_V	1.565	1.00
140_P	144_W	1.506	1.00
23_T	229_M	1.504	1.00
69_L	190_G	1.503	1.00
171_P	185_H	1.497	1.00
239_L	266_C	1.474	1.00
239_L	243_M	1.464	1.00
149_V	198_A	1.461	1.00
156_L	160_C	1.448	1.00
254_S	257_G	1.441	1.00
145_M	148_S	1.437	1.00
246_F	250_W	1.426	1.00
261_A	265_V	1.412	1.00
218_A	263_T	1.394	1.00
34_A	212_L	1.377	1.00
167_A	181_V	1.373	1.00
164_F	188_Q	1.330	1.00
40_T	71_T	1.329	1.00
80_S	182_L	1.324	1.00
97_F	206_V	1.323	1.00
73_F	190_G	1.322	1.00
6_W	140_P	1.321	1.00
272_L	276_A	1.310	1.00
142_A	201_D	1.310	1.00
174_A	181_V	1.303	1.00
160_C	187_V	1.301	1.00
160_C	184_I	1.300	1.00
4_E	249_T	1.300	1.00
224_D	276_A	1.296	1.00
12_V	242_V	1.294	1.00
161_Y	230_L	1.279	1.00
23_T	230_L	1.276	1.00
228_Y	231_I	1.267	1.00
65_A	194_L	1.266	1.00
43_L	100_G	1.265	1.00
273_F	276_A	1.258	1.00
228_Y	232_L	1.242	1.00
221_L	270_A	1.240	1.00
73_F	77_L	1.233	1.00
234_A	238_G	1.222	1.00
221_L	274_S	1.216	1.00
231_I	234_A	1.206	1.00
148_S	152_L	1.203	1.00
83_V	267_Y	1.198	1.00
50_L	103_L	1.192	1.00
165_K	226_L	1.190	1.00
8_I	242_V	1.175	1.00
245_Y	255_I	1.174	1.00
268_A	272_L	1.167	1.00
28_R	171_P	1.154	1.00
35_D	93_F	1.153	1.00
174_A	179_I	1.151	1.00
211_M	263_T	1.146	1.00
19_G	233_S	1.133	1.00
154_V	158_S	1.129	1.00
28_R	168_S	1.127	1.00
156_L	164_F	1.126	1.00
218_A	240_S	1.123	1.00
14_V	18_C	1.122	1.00
265_V	269_S	1.115	1.00
11_G	259_M	1.108	1.00
219_A	236_I	1.100	1.00
23_T	233_S	1.098	1.00
35_D	39_H	1.086	1.00
91_V	217_A	1.080	1.00
179_I	184_I	1.079	1.00
127_P	140_P	1.073	1.00
180_P	184_I	1.071	1.00
161_Y	227_L	1.070	1.00
24_F	157_I	1.070	1.00
266_C	270_A	1.067	1.00
155_V	159_V	1.049	1.00
7_I	245_Y	1.049	1.00
244_G	259_M	1.047	1.00
140_P	143_F	1.047	1.00
227_L	231_I	1.045	1.00
222_L	232_L	1.044	1.00
197_V	206_V	1.038	1.00
235_L	239_L	1.037	1.00
9_A	143_F	1.036	1.00
214_V	263_T	1.035	1.00
46_V	103_L	1.029	1.00
25_L	192_L	1.027	1.00
219_A	223_T	1.015	1.00
42_L	100_G	1.012	1.00
164_F	184_I	0.988	1.00
46_V	104_L	0.974	1.00
149_V	153_N	0.972	0.99
24_F	230_L	0.959	0.99
70_L	74_L	0.958	0.99
144_W	147_A	0.957	0.99
247_F	258_A	0.951	0.99
127_P	141_K	0.949	0.99
62_I	66_A	0.935	0.99
163_E	184_I	0.932	0.99
183_L	186_Y	0.930	0.99
218_A	221_L	0.927	0.99
152_L	155_V	0.924	0.99
59_Y	62_I	0.922	0.99
36_A	89_I	0.919	0.99
166_I	174_A	0.918	0.99
102_I	253_V	0.915	0.99
64_A	68_G	0.912	0.99
272_L	275_P	0.911	0.99
9_A	13_L	0.903	0.99
221_L	271_F	0.897	0.99
25_L	32_M	0.892	0.99
40_T	43_L	0.891	0.99
5_A	9_A	0.884	0.99
47_G	67_T	0.884	0.99
237_G	241_A	0.883	0.99
17_S	195_T	0.878	0.99
11_G	245_Y	0.866	0.99
167_A	184_I	0.860	0.99
122_E	257_G	0.859	0.99
105_S	254_S	0.857	0.99
76_Q	189_M	0.857	0.99
160_C	188_Q	0.856	0.99
122_E	205_A	0.855	0.99
42_L	104_L	0.854	0.99
111_V	114_D	0.852	0.99
147_A	151_V	0.849	0.99
123_I	255_I	0.838	0.98
22_G	263_T	0.832	0.98
150_L	154_V	0.831	0.98
182_L	185_H	0.831	0.98
34_A	120_M	0.826	0.98
27_L	168_S	0.825	0.98
230_L	234_A	0.814	0.98
173_M	176_A	0.811	0.98
19_G	234_A	0.811	0.98
164_F	167_A	0.811	0.98
63_G	67_T	0.810	0.98
38_S	169_F	0.806	0.98
19_G	216_P	0.799	0.98
10_T	202_S	0.799	0.98
50_L	107_Y	0.799	0.98
142_A	145_M	0.799	0.98
83_V	88_A	0.794	0.98
161_Y	165_K	0.794	0.98
78_L	92_V	0.790	0.98
83_V	87_A	0.790	0.98
141_K	144_W	0.790	0.98
214_V	264_G	0.788	0.98
35_D	213_I	0.788	0.98
31_A	213_I	0.785	0.98
46_V	96_L	0.781	0.98
24_F	161_Y	0.779	0.98
90_G	213_I	0.775	0.97
77_L	186_Y	0.774	0.97
218_A	267_Y	0.772	0.97
166_I	177_L	0.767	0.97
51_V	57_G	0.765	0.97
8_I	245_Y	0.760	0.97
20_L	230_L	0.756	0.97
17_S	198_A	0.755	0.97
24_F	28_R	0.752	0.97
270_A	274_S	0.752	0.97
171_P	175_L	0.751	0.97
95_S	99_I	0.749	0.97
230_L	233_S	0.744	0.97
38_S	84_Q	0.737	0.97
232_L	235_L	0.732	0.96
218_A	222_L	0.732	0.96
47_G	103_L	0.730	0.96
270_A	273_F	0.730	0.96
236_I	270_A	0.729	0.96
12_V	15_G	0.727	0.96
199_S	208_V	0.726	0.96
67_T	70_L	0.725	0.96
15_G	238_G	0.725	0.96
24_F	164_F	0.722	0.96
41_V	68_G	0.721	0.96
153_N	195_T	0.721	0.96
28_R	185_H	0.718	0.96
102_I	257_G	0.715	0.96
157_I	230_L	0.714	0.96
258_A	262_M	0.714	0.96
192_L	212_L	0.714	0.96
242_V	246_F	0.709	0.96
26_V	31_A	0.708	0.96
58_I	63_G	0.708	0.96
47_G	66_A	0.705	0.96
188_Q	192_L	0.703	0.96
143_F	147_A	0.700	0.95
58_I	62_I	0.700	0.95
17_S	153_N	0.699	0.95
11_G	15_G	0.698	0.95
62_I	65_A	0.698	0.95
159_V	163_E	0.697	0.95
141_K	151_V	0.695	0.95
34_A	213_I	0.689	0.95
127_P	142_A	0.688	0.95
79_H	85_S	0.688	0.95
153_N	191_M	0.686	0.95
170_D	173_M	0.686	0.95
144_W	247_F	0.683	0.95
21_I	191_M	0.683	0.95
158_S	231_I	0.682	0.95
224_D	277_N	0.681	0.95
114_D	117_H	0.680	0.95
13_L	143_F	0.678	0.95
158_S	162_K	0.678	0.95
271_F	274_S	0.672	0.94
146_L	198_A	0.671	0.94
16_V	238_G	0.669	0.94
36_A	42_L	0.667	0.94
99_I	102_I	0.666	0.94
7_I	124_A	0.665	0.94
35_D	209_V	0.664	0.94
126_V	202_S	0.663	0.94
124_A	237_G	0.663	0.94
15_G	256_S	0.662	0.94
19_G	23_T	0.658	0.94
189_M	200_F	0.657	0.94
66_A	70_L	0.656	0.94
190_G	194_L	0.649	0.93
36_A	43_L	0.648	0.93
265_V	272_L	0.642	0.93
14_V	202_S	0.641	0.93
15_G	19_G	0.639	0.93
14_V	199_S	0.639	0.93
4_E	245_Y	0.637	0.93
262_M	266_C	0.635	0.92
77_L	80_S	0.635	0.92
73_F	186_Y	0.634	0.92
243_M	247_F	0.631	0.92
5_A	8_I	0.627	0.92
46_V	97_F	0.627	0.92
274_S	277_N	0.626	0.92
76_Q	216_P	0.626	0.92
225_R	229_M	0.626	0.92
271_F	275_P	0.625	0.92
6_W	26_V	0.622	0.92
37_I	68_G	0.621	0.92
32_M	81_K	0.619	0.92
80_S	185_H	0.614	0.91
83_V	86_D	0.613	0.91
264_G	268_A	0.613	0.91
48_A	59_Y	0.612	0.91
90_G	217_A	0.611	0.91
69_L	73_F	0.608	0.91
123_I	259_M	0.607	0.91
44_G	63_G	0.606	0.91
24_F	188_Q	0.605	0.91
164_F	172_Q	0.603	0.90
85_S	189_M	0.603	0.90
10_T	123_I	0.602	0.90
23_T	26_V	0.601	0.90
16_V	154_V	0.600	0.90
185_H	189_M	0.595	0.90
48_A	58_I	0.595	0.90
163_E	180_P	0.594	0.90
20_L	234_A	0.593	0.90
34_A	38_S	0.587	0.89
161_Y	226_L	0.587	0.89
142_A	254_S	0.585	0.89
76_Q	185_H	0.584	0.89
51_V	58_I	0.579	0.89
149_V	194_L	0.577	0.88
115_I	260_A	0.575	0.88
4_E	7_I	0.573	0.88
184_I	187_V	0.573	0.88
141_K	145_M	0.571	0.88
232_L	270_A	0.571	0.88
19_G	212_L	0.570	0.88
38_S	41_V	0.569	0.88
8_I	246_F	0.568	0.88
14_V	206_V	0.567	0.88
255_I	258_A	0.565	0.87
18_C	207_L	0.565	0.87
94_T	98_A	0.564	0.87
24_F	168_S	0.564	0.87
100_G	255_I	0.561	0.87
243_M	273_F	0.560	0.87
72_A	193_S	0.560	0.87
38_S	42_L	0.559	0.87
39_H	42_L	0.559	0.87
49_F	113_L	0.557	0.87
64_A	93_F	0.553	0.86
41_V	118_S	0.553	0.86
148_S	151_V	0.552	0.86
107_Y	237_G	0.550	0.86
147_A	150_L	0.549	0.86
61_F	65_A	0.549	0.86
71_T	75_V	0.549	0.86
117_H	122_E	0.548	0.86
27_L	34_A	0.547	0.86
104_L	113_L	0.547	0.86
155_V	158_S	0.544	0.85
41_V	200_F	0.543	0.85
247_F	250_W	0.542	0.85
79_H	185_H	0.541	0.85
16_V	237_G	0.540	0.85
40_T	96_L	0.539	0.85
146_L	202_S	0.538	0.85
169_F	213_I	0.537	0.85
74_L	92_V	0.537	0.85
7_I	10_T	0.535	0.84
4_E	246_F	0.533	0.84
64_A	188_Q	0.528	0.84
43_L	93_F	0.525	0.83
43_L	97_F	0.525	0.83
43_L	89_I	0.525	0.83
112_H	202_S	0.525	0.83
113_L	116_E	0.525	0.83
228_Y	265_V	0.523	0.83
165_K	168_S	0.523	0.83
104_L	116_E	0.522	0.83
243_M	266_C	0.522	0.83
33_L	169_F	0.520	0.83
158_S	161_Y	0.520	0.83
22_G	28_R	0.519	0.83
273_F	277_N	0.519	0.83
40_T	254_S	0.518	0.83
74_L	77_L	0.518	0.83
22_G	30_M	0.515	0.82
32_M	40_T	0.513	0.82
69_L	194_L	0.513	0.82
22_G	237_G	0.512	0.82
193_S	199_S	0.512	0.82
175_L	183_L	0.511	0.82
34_A	209_V	0.510	0.82
105_S	122_E	0.510	0.82
158_S	265_V	0.508	0.81
211_M	241_A	0.508	0.81
123_I	249_T	0.508	0.81
195_T	208_V	0.507	0.81
142_A	200_F	0.506	0.81
71_T	96_L	0.506	0.81
89_I	208_V	0.504	0.81
262_M	265_V	0.502	0.81
92_V	96_L	0.501	0.80
96_L	122_E	0.500	0.80

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
2qi9A	2	0.8746	100	0.574	Contact Map
2nq2A	2	0.8644	100	0.578	Contact Map
4g1uA	2	0.8542	100	0.595	Contact Map
2zy9A	2	0.2983	44.2	0.95	Contact Map
4p6vB	1	0.7186	15.5	0.96	Contact Map
3zuxA	1	0.9017	12.8	0.962	Contact Map
4n7wA	2	0.9322	11.4	0.963	Contact Map
2m20A	2	0.1661	10.9	0.963	Contact Map
2kluA	1	0.1593	6.3	0.967	Contact Map
4czbA	2	0.6915	5.6	0.968	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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