Q97UP4 - SULSO - GREMLIN Contacts

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Q97UP4 - NADH dehydrogenase

UniProt:	Q97UP4	Sequences: MRVVIVGGGFAGIAAKSKYPNAILIDRSEYFLMTPKIVHTLADGESALVYRKPDIVAEVVNIKFNEKKIITNKGEISYDKLIISLGYSQDLSKIKGANEHVMKLESFEDAIKMHNEIEKARTLIVIGGGDLGVEVVGSTIELVSKIKRKGKERVILINRGARILPHMPPQISLKAENILAELGVEVILDASVEEIRGKTVITSKGEFSGDHIFYAGGIKGSNFLTNLKLSLKDGKINVNEDLSSVDYKDVYGAGVCASTFYPSNAEISMQSGVHAILNAIEGRDEKFKPMPLGDIVDIDNNFMGVFMGLPVRGNFAKLLKRIALAKVYYTINKVNFYNKNLKI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	343 (289)
Sequences:	40064 (28428)
Seq/√Len:	1672.2

ECOLI - DHNA RCLA STHA NORW DLDH HCAD GSHR NIRB TRXB AHPF PRET GLTD
BACSU - YUMB YJLD YUTJ DLDH3 DLDH1 DLDH2 NASB NASD DHNA YPDA FENR2 CZCO FENR1 TRXB GLTB
HALSA - Q9HR27 Q9HP48 DLDH Q9HSN0 P82854
SULSO - Q97UP4 Q97U72 Q97ZB4 Q97WG1 Q97YT2 Q97WE3 Q97VD9 Q97VJ3 Q97XZ3 Q97Z19 Q97Y24 Q97UV0 Q97VQ4 Q97Z14 Q97V69 FENR Q97W27

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
124_I	209_G	4.256	1.00
27_R	58_E	3.900	1.00
122_T	153_R	3.390	1.00
2_R	21_N	3.167	1.00
155_I	187_I	3.075	1.00
68_K	75_E	2.980	1.00
67_K	249_D	2.875	1.00
153_R	185_E	2.838	1.00
15_A	82_I	2.642	1.00
176_E	180_A	2.589	1.00
90_D	219_K	2.505	1.00
239_N	243_S	2.462	1.00
196_R	201_I	2.396	1.00
124_I	157_I	2.350	1.00
25_I	76_I	2.335	1.00
230_S	237_N	2.324	1.00
159_R	191_S	2.292	1.00
64_F	247_Y	2.271	1.00
122_T	210_D	2.267	1.00
2_R	79_D	2.195	1.00
95_K	194_E	2.192	1.00
194_E	201_I	2.184	1.00
80_K	249_D	2.182	1.00
4_V	25_I	2.156	1.00
155_I	185_E	2.147	1.00
187_I	206_E	2.132	1.00
78_Y	81_L	2.125	1.00
70_I	75_E	2.114	1.00
88_S	221_S	2.107	1.00
122_T	155_I	2.085	1.00
190_A	204_K	1.980	1.00
63_K	66_E	1.973	1.00
230_S	246_D	1.952	1.00
202_T	205_G	1.916	1.00
191_S	203_S	1.908	1.00
11_A	253_A	1.886	1.00
161_A	189_D	1.882	1.00
240_E	286_K	1.878	1.00
57_A	73_K	1.835	1.00
80_K	251_Y	1.826	1.00
88_S	219_K	1.811	1.00
193_E	201_I	1.785	1.00
251_Y	278_N	1.781	1.00
68_K	77_S	1.780	1.00
85_L	256_C	1.774	1.00
61_N	70_I	1.764	1.00
223_F	226_N	1.731	1.00
157_I	207_F	1.697	1.00
4_V	76_I	1.692	1.00
67_K	71_T	1.682	1.00
193_E	203_S	1.677	1.00
4_V	69_I	1.657	1.00
82_I	253_A	1.652	1.00
4_V	78_Y	1.625	1.00
243_S	248_K	1.584	1.00
187_I	190_A	1.573	1.00
2_R	23_I	1.566	1.00
122_T	208_S	1.501	1.00
123_L	139_T	1.493	1.00
236_I	252_G	1.488	1.00
124_I	200_V	1.481	1.00
21_N	54_D	1.459	1.00
4_V	23_I	1.430	1.00
3_V	20_P	1.424	1.00
58_E	72_N	1.414	1.00
8_G	26_D	1.414	1.00
169_P	173_L	1.406	1.00
162_R	172_S	1.403	1.00
57_A	72_N	1.397	1.00
106_S	109_D	1.394	1.00
71_T	76_I	1.382	1.00
128_G	158_N	1.382	1.00
36_K	39_H	1.380	1.00
88_S	222_N	1.363	1.00
140_I	184_V	1.363	1.00
158_N	188_L	1.355	1.00
29_E	56_V	1.351	1.00
176_E	188_L	1.347	1.00
238_V	257_A	1.333	1.00
71_T	74_G	1.330	1.00
108_E	111_I	1.330	1.00
140_I	153_R	1.327	1.00
11_A	268_S	1.321	1.00
195_I	212_I	1.319	1.00
100_H	197_G	1.303	1.00
190_A	206_E	1.302	1.00
60_V	70_I	1.292	1.00
61_N	226_N	1.290	1.00
202_T	207_F	1.284	1.00
123_L	211_H	1.274	1.00
272_G	276_I	1.274	1.00
3_V	82_I	1.271	1.00
178_I	182_L	1.268	1.00
178_I	181_E	1.258	1.00
6_V	59_V	1.253	1.00
6_V	85_L	1.251	1.00
5_I	12_G	1.251	1.00
274_H	278_N	1.220	1.00
133_V	156_L	1.220	1.00
121_R	210_D	1.216	1.00
173_L	176_E	1.207	1.00
64_F	250_V	1.205	1.00
242_L	257_A	1.204	1.00
241_D	278_N	1.202	1.00
37_I	40_T	1.202	1.00
60_V	72_N	1.192	1.00
63_K	68_K	1.184	1.00
187_I	207_F	1.165	1.00
123_L	152_E	1.160	1.00
190_A	203_S	1.153	1.00
23_I	55_I	1.149	1.00
87_Y	218_I	1.144	1.00
241_D	286_K	1.142	1.00
103_K	106_S	1.133	1.00
49_V	52_K	1.129	1.00
23_I	76_I	1.123	1.00
162_R	169_P	1.122	1.00
23_I	54_D	1.119	1.00
253_A	275_A	1.114	1.00
232_K	237_N	1.108	1.00
155_I	209_G	1.096	1.00
105_E	108_E	1.092	1.00
122_T	152_E	1.091	1.00
105_E	109_D	1.091	1.00
84_S	253_A	1.086	1.00
104_L	107_F	1.083	1.00
57_A	71_T	1.079	1.00
174_K	178_I	1.078	1.00
177_N	180_A	1.075	1.00
93_K	97_A	1.072	1.00
57_A	61_N	1.071	1.00
177_N	181_E	1.066	1.00
109_D	112_K	1.062	1.00
277_L	285_E	1.062	1.00
2_R	77_S	1.062	1.00
243_S	249_D	1.061	1.00
242_L	275_A	1.048	1.00
133_V	298_I	1.048	1.00
102_M	106_S	1.046	1.00
247_Y	250_V	1.044	1.00
83_I	256_C	1.044	1.00
209_G	212_I	1.043	1.00
63_K	70_I	1.037	1.00
104_L	108_E	1.034	1.00
15_A	253_A	1.031	1.00
110_A	113_M	1.028	1.00
241_D	284_D	1.026	1.00
163_I	188_L	1.025	1.00
238_V	252_G	1.023	1.00
82_I	275_A	1.023	1.00
190_A	202_T	1.019	1.00
275_A	278_N	1.014	1.00
6_V	83_I	1.008	1.00
162_R	176_E	1.007	1.00
148_R	182_L	0.998	1.00
126_I	212_I	0.994	1.00
15_A	272_G	0.983	1.00
15_A	275_A	0.964	1.00
25_I	59_V	0.957	1.00
66_E	75_E	0.954	1.00
196_R	199_T	0.952	1.00
140_I	182_L	0.950	1.00
126_I	216_G	0.944	1.00
155_I	207_F	0.942	1.00
107_F	111_I	0.939	1.00
101_V	104_L	0.938	1.00
51_R	54_D	0.935	1.00
236_I	256_C	0.935	1.00
89_Q	92_S	0.933	1.00
106_S	110_A	0.929	1.00
167_M	294_D	0.926	1.00
242_L	274_H	0.925	1.00
243_S	251_Y	0.924	1.00
174_K	177_N	0.922	1.00
252_G	256_C	0.916	1.00
5_I	15_A	0.912	1.00
136_V	156_L	0.912	1.00
237_N	246_D	0.909	1.00
126_I	214_Y	0.907	1.00
57_A	60_V	0.906	1.00
294_D	303_M	0.905	1.00
267_I	271_S	0.904	1.00
252_G	257_A	0.904	1.00
244_S	252_G	0.901	1.00
223_F	227_L	0.892	1.00
8_G	24_L	0.890	1.00
15_A	276_I	0.888	1.00
107_F	110_A	0.887	1.00
81_L	250_V	0.884	1.00
173_L	177_N	0.883	1.00
231_L	237_N	0.883	1.00
120_A	152_E	0.883	1.00
198_K	208_S	0.878	1.00
20_P	79_D	0.875	1.00
3_V	80_K	0.870	1.00
124_I	207_F	0.869	1.00
176_E	186_V	0.864	1.00
99_E	102_M	0.863	1.00
125_V	136_V	0.862	1.00
36_K	40_T	0.856	1.00
59_V	62_I	0.849	1.00
157_I	187_I	0.848	1.00
243_S	278_N	0.847	1.00
41_L	48_L	0.846	1.00
251_Y	275_A	0.841	1.00
119_K	152_E	0.841	1.00
244_S	247_Y	0.838	1.00
243_S	247_Y	0.832	1.00
268_S	272_G	0.830	1.00
12_G	84_S	0.830	1.00
14_A	269_M	0.829	1.00
25_I	71_T	0.828	1.00
158_N	165_P	0.825	1.00
238_V	242_L	0.824	1.00
121_R	152_E	0.822	1.00
111_I	114_H	0.820	1.00
105_E	110_A	0.817	1.00
172_S	176_E	0.815	1.00
82_I	280_I	0.814	1.00
80_K	280_I	0.811	1.00
202_T	206_E	0.801	1.00
227_L	231_L	0.799	1.00
102_M	105_E	0.796	1.00
102_M	211_H	0.791	1.00
110_A	114_H	0.788	1.00
167_M	303_M	0.784	1.00
102_M	107_F	0.781	1.00
157_I	202_T	0.775	1.00
56_V	59_V	0.773	1.00
102_M	110_A	0.772	1.00
90_D	93_K	0.772	1.00
91_L	103_K	0.770	1.00
128_G	163_I	0.768	1.00
270_Q	273_V	0.767	1.00
162_R	173_L	0.762	1.00
59_V	69_I	0.760	1.00
114_H	120_A	0.756	1.00
126_I	192_V	0.755	1.00
101_V	195_I	0.753	1.00
14_A	272_G	0.752	1.00
278_N	285_E	0.752	1.00
235_K	263_S	0.746	1.00
222_N	225_T	0.743	1.00
66_E	77_S	0.742	1.00
277_L	283_R	0.741	1.00
160_G	165_P	0.740	1.00
63_K	67_K	0.739	1.00
108_E	112_K	0.739	1.00
137_G	148_R	0.739	1.00
135_V	138_S	0.738	1.00
273_V	277_L	0.733	1.00
25_I	78_Y	0.727	1.00
91_L	97_A	0.727	1.00
257_A	271_S	0.724	1.00
125_V	213_F	0.723	1.00
107_F	113_M	0.721	1.00
122_T	209_G	0.717	1.00
180_A	185_E	0.713	1.00
132_G	158_N	0.712	1.00
101_V	105_E	0.712	1.00
61_N	64_F	0.711	1.00
18_K	277_L	0.709	1.00
169_P	172_S	0.708	1.00
11_A	84_S	0.705	1.00
25_I	57_A	0.703	1.00
232_K	235_K	0.700	1.00
61_N	81_L	0.699	1.00
274_H	287_F	0.699	1.00
253_A	272_G	0.699	1.00
97_A	214_Y	0.697	1.00
104_L	110_A	0.696	1.00
17_S	20_P	0.694	1.00
28_S	38_V	0.694	1.00
113_M	211_H	0.693	1.00
96_G	194_E	0.690	1.00
64_F	67_K	0.686	1.00
111_I	115_N	0.686	1.00
131_L	215_A	0.684	1.00
92_S	214_Y	0.684	1.00
2_R	76_I	0.683	1.00
4_V	67_K	0.682	1.00
228_K	231_L	0.682	1.00
10_F	14_A	0.682	1.00
62_I	81_L	0.681	1.00
133_V	179_L	0.678	1.00
125_V	132_G	0.674	1.00
157_I	190_A	0.674	1.00
4_V	81_L	0.674	1.00
109_D	113_M	0.670	1.00
136_V	154_V	0.669	1.00
158_N	161_A	0.666	1.00
21_N	79_D	0.664	1.00
276_I	280_I	0.662	1.00
280_I	283_R	0.660	1.00
2_R	20_P	0.660	1.00
11_A	82_I	0.659	1.00
49_V	54_D	0.659	1.00
32_L	35_P	0.658	1.00
59_V	63_K	0.658	1.00
127_G	132_G	0.656	1.00
94_I	97_A	0.653	1.00
78_Y	249_D	0.652	1.00
225_T	231_L	0.651	1.00
261_Y	267_I	0.648	1.00
101_V	106_S	0.647	1.00
170_Q	173_L	0.647	1.00
5_I	22_A	0.647	1.00
91_L	214_Y	0.647	1.00
222_N	226_N	0.644	1.00
59_V	64_F	0.643	1.00
161_A	169_P	0.642	1.00
301_N	305_V	0.642	1.00
175_A	178_I	0.640	1.00
105_E	111_I	0.640	1.00
135_V	213_F	0.639	1.00
287_F	290_M	0.636	1.00
244_S	250_V	0.634	1.00
179_L	186_V	0.633	1.00
105_E	113_M	0.632	1.00
95_K	98_N	0.630	1.00
227_L	247_Y	0.628	1.00
124_I	155_I	0.627	1.00
70_I	73_K	0.627	1.00
103_K	109_D	0.627	1.00
97_A	101_V	0.622	1.00
136_V	184_V	0.621	1.00
85_L	223_F	0.620	1.00
148_R	299_D	0.619	1.00
107_F	114_H	0.618	1.00
102_M	108_E	0.616	1.00
49_V	53_P	0.615	1.00
132_G	215_A	0.614	1.00
201_I	204_K	0.613	1.00
27_R	221_S	0.613	1.00
99_E	106_S	0.612	1.00
100_H	103_K	0.607	1.00
99_E	197_G	0.607	1.00
220_G	235_K	0.606	1.00
156_L	186_V	0.604	1.00
65_N	68_K	0.604	1.00
242_L	278_N	0.604	1.00
258_S	261_Y	0.603	1.00
14_A	273_V	0.601	1.00
192_V	200_V	0.597	1.00
302_F	305_V	0.597	1.00
171_I	174_K	0.596	1.00
185_E	206_E	0.596	1.00
185_E	188_L	0.593	1.00
274_H	286_K	0.593	1.00
266_E	270_Q	0.592	1.00
5_I	84_S	0.589	1.00
269_M	273_V	0.587	1.00
40_T	111_I	0.587	1.00
23_I	78_Y	0.584	1.00
276_I	281_E	0.584	1.00
10_F	265_A	0.583	1.00
61_N	67_K	0.582	1.00
270_Q	274_H	0.580	1.00
91_L	98_N	0.579	1.00
92_S	97_A	0.578	1.00
55_I	59_V	0.577	1.00
8_G	31_F	0.576	1.00
175_A	301_N	0.574	1.00
118_E	121_R	0.572	1.00
224_L	227_L	0.570	1.00
264_N	267_I	0.570	1.00
90_D	216_G	0.568	1.00
103_K	108_E	0.567	1.00
297_D	300_N	0.566	1.00
64_F	249_D	0.566	1.00
163_I	172_S	0.562	1.00
208_S	211_H	0.562	1.00
168_P	305_V	0.560	1.00
229_L	244_S	0.558	1.00
229_L	236_I	0.557	1.00
294_D	299_D	0.556	1.00
187_I	202_T	0.556	1.00
133_V	186_V	0.556	1.00
112_K	115_N	0.555	1.00
5_I	24_L	0.554	1.00
124_I	212_I	0.553	1.00
123_L	154_V	0.553	1.00
16_K	20_P	0.551	1.00
55_I	76_I	0.551	1.00
140_I	183_G	0.550	1.00
59_V	71_T	0.549	1.00
67_K	247_Y	0.549	1.00
137_G	182_L	0.546	1.00
65_N	247_Y	0.545	1.00
120_A	210_D	0.544	1.00
163_I	186_V	0.543	1.00
150_G	154_V	0.542	1.00
229_L	247_Y	0.541	1.00
270_Q	287_F	0.541	1.00
162_R	165_P	0.539	1.00
66_E	71_T	0.539	1.00
195_I	200_V	0.538	1.00
123_L	213_F	0.538	1.00
56_V	62_I	0.537	1.00
135_V	139_T	0.536	1.00
278_N	284_D	0.536	1.00
255_V	268_S	0.532	1.00
10_F	33_M	0.532	1.00
180_A	186_V	0.532	1.00
229_L	246_D	0.531	1.00
68_K	71_T	0.529	1.00
138_S	149_K	0.529	1.00
101_V	107_F	0.528	1.00
175_A	298_I	0.527	1.00
175_A	179_L	0.526	1.00
50_Y	53_P	0.525	1.00
104_L	109_D	0.525	1.00
200_V	204_K	0.524	1.00
163_I	176_E	0.524	1.00
158_N	186_V	0.523	1.00
62_I	75_E	0.522	1.00
289_P	292_L	0.518	1.00
231_L	236_I	0.518	1.00
170_Q	174_K	0.518	1.00
271_S	275_A	0.517	1.00
107_F	112_K	0.517	1.00
303_M	306_F	0.516	1.00
89_Q	103_K	0.515	1.00
100_H	104_L	0.514	1.00
106_S	111_I	0.514	1.00
228_K	247_Y	0.514	1.00
231_L	235_K	0.510	1.00
292_L	295_I	0.510	1.00
101_V	108_E	0.509	1.00
62_I	223_F	0.509	1.00
158_N	163_I	0.508	1.00
20_P	80_K	0.504	1.00
101_V	109_D	0.503	1.00
60_V	63_K	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
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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
4g6hA	2	0.9971	100	0.318	Contact Map
4nwzA	2	0.9796	100	0.377	Contact Map
3h8lA	2	0.8776	100	0.383	Contact Map
3sx6A	2	1	100	0.403	Contact Map
3hywA	4	0.9942	100	0.405	Contact Map
1ojtA	2	0.9475	100	0.406	Contact Map
3cgbA	2	0.9679	100	0.408	Contact Map
1lvlA	2	0.9388	100	0.409	Contact Map
1xhcA	1	0.9155	100	0.41	Contact Map
2cduA	2	0.9708	100	0.41	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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