Q97ZB4 - SULSO - GREMLIN Contacts

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Q97ZB4 - NADH dehydrogenase

UniProt:	Q97ZB4	Sequences: MILILGGGFAGVSAYNQNKENSLVVDRKDYFLLTPWIIDFICGMKKLEDIIVKYKKVILGNVQKIDFKNKKVILDNSKELTYDKLIVSLGHHQNLPRLKGAKEYAHKIETLEDAIELKRRLNEVKDITIIGGGATGVELAGNIKGKKITLVQRRNRLLPTMSTASSKKAEDLLRELGVNLMLGVEAIEIKKDSVVTSYGEIKTELTIFAGGLKGPQIVGNLHANKNHRLLVDKNLKSIEYNDVYGAGDCVTFEDKEIPMTADIAVAAGRVVMKNILGNEIEFKPKRLATTIRIRNEFFGDFGENYVEGKFAKILKDISYLESLLLPRRLRE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	331 (269)
Sequences:	51111 (35655)
Seq/√Len:	2173.9

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
128_T	203_T	4.417	1.00
126_D	147_K	3.789	1.00
149_T	181_M	3.482	1.00
147_K	179_N	3.335	1.00
232_D	236_K	2.916	1.00
70_K	242_D	2.766	1.00
27_R	61_N	2.740	1.00
71_K	79_E	2.733	1.00
94_N	213_K	2.637	1.00
170_E	174_R	2.600	1.00
14_A	86_I	2.582	1.00
126_D	204_E	2.519	1.00
128_T	151_V	2.509	1.00
99_K	188_E	2.489	1.00
224_N	230_L	2.415	1.00
190_K	195_V	2.342	1.00
188_E	195_V	2.323	1.00
66_D	69_N	2.305	1.00
126_D	149_T	2.242	1.00
86_I	275_I	2.205	1.00
67_F	240_Y	2.171	1.00
73_I	79_E	2.127	1.00
2_I	18_N	2.068	1.00
84_K	242_D	2.046	1.00
82_Y	85_L	2.039	1.00
3_L	80_L	2.019	1.00
153_R	185_E	1.960	1.00
126_D	146_K	1.943	1.00
92_H	213_K	1.928	1.00
92_H	216_Q	1.919	1.00
10_A	246_A	1.918	1.00
149_T	179_N	1.916	1.00
25_V	80_L	1.892	1.00
92_H	215_P	1.876	1.00
184_V	198_Y	1.834	1.00
89_L	249_C	1.822	1.00
126_D	202_K	1.798	1.00
187_I	195_V	1.798	1.00
3_L	72_V	1.793	1.00
60_G	76_N	1.749	1.00
86_I	246_A	1.742	1.00
151_V	201_I	1.728	1.00
155_N	183_G	1.714	1.00
3_L	82_Y	1.703	1.00
185_E	197_S	1.696	1.00
71_K	81_T	1.678	1.00
64_K	73_I	1.662	1.00
181_M	184_V	1.653	1.00
125_K	204_E	1.602	1.00
244_Y	274_N	1.572	1.00
236_K	241_N	1.571	1.00
84_K	244_Y	1.560	1.00
84_K	275_I	1.554	1.00
224_N	239_E	1.552	1.00
128_T	194_V	1.535	1.00
187_I	197_S	1.523	1.00
64_K	220_N	1.516	1.00
229_L	245_G	1.500	1.00
181_M	200_E	1.490	1.00
271_V	275_I	1.488	1.00
231_V	250_V	1.487	1.00
189_I	206_T	1.473	1.00
61_N	75_D	1.461	1.00
268_G	272_M	1.448	1.00
67_F	243_V	1.445	1.00
272_M	276_L	1.443	1.00
3_L	25_V	1.428	1.00
4_I	15_Y	1.409	1.00
5_L	62_V	1.386	1.00
110_T	113_D	1.385	1.00
127_I	143_I	1.363	1.00
74_L	80_L	1.353	1.00
172_L	175_E	1.340	1.00
72_V	76_N	1.339	1.00
21_N	276_L	1.323	1.00
97_R	101_A	1.307	1.00
152_Q	182_L	1.296	1.00
23_L	26_D	1.293	1.00
28_K	61_N	1.286	1.00
66_D	71_K	1.284	1.00
240_Y	243_V	1.284	1.00
196_T	201_I	1.276	1.00
102_K	191_K	1.267	1.00
17_Q	273_K	1.253	1.00
10_A	264_A	1.250	1.00
196_T	199_G	1.242	1.00
231_V	245_G	1.241	1.00
63_Q	73_I	1.237	1.00
88_S	246_A	1.234	1.00
270_V	274_N	1.230	1.00
132_G	152_Q	1.228	1.00
149_T	203_T	1.226	1.00
229_L	249_C	1.216	1.00
127_I	146_K	1.210	1.00
63_Q	75_D	1.198	1.00
167_K	170_E	1.190	1.00
137_V	150_L	1.188	1.00
172_L	176_L	1.183	1.00
74_L	78_K	1.178	1.00
167_K	171_D	1.177	1.00
170_E	182_L	1.170	1.00
163_T	167_K	1.167	1.00
112_E	115_I	1.161	1.00
171_D	174_R	1.157	1.00
217_I	220_N	1.153	1.00
235_L	250_V	1.141	1.00
124_V	146_K	1.136	1.00
231_V	235_L	1.134	1.00
60_G	75_D	1.131	1.00
4_I	11_G	1.130	1.00
7_G	26_D	1.130	1.00
17_Q	20_E	1.130	1.00
171_D	175_E	1.129	1.00
156_R	166_S	1.122	1.00
21_N	273_K	1.121	1.00
66_D	73_I	1.121	1.00
127_I	205_L	1.113	1.00
113_D	116_E	1.103	1.00
184_V	196_T	1.101	1.00
5_L	87_V	1.100	1.00
39_D	42_C	1.089	1.00
5_L	89_L	1.083	1.00
17_Q	21_N	1.078	1.00
130_I	206_T	1.072	1.00
246_A	271_V	1.071	1.00
234_N	274_N	1.057	1.00
42_C	46_K	1.042	1.00
235_L	271_V	1.034	1.00
29_D	59_L	1.028	1.00
235_L	270_V	1.025	1.00
236_K	242_D	1.021	1.00
216_Q	219_G	1.021	1.00
46_K	49_D	1.019	1.00
237_S	245_G	1.014	1.00
14_A	246_A	1.007	1.00
17_Q	269_R	1.004	1.00
19_K	55_K	0.999	1.00
111_L	115_I	0.999	1.00
87_V	249_C	0.997	1.00
263_I	267_A	0.997	1.00
157_L	182_L	0.995	1.00
225_K	230_L	0.990	1.00
100_G	188_E	0.989	1.00
18_N	272_M	0.985	1.00
15_Y	24_V	0.977	1.00
14_A	268_G	0.970	1.00
181_M	201_I	0.968	1.00
128_T	201_I	0.964	1.00
184_V	197_S	0.962	1.00
60_G	74_L	0.958	1.00
190_K	193_S	0.957	1.00
140_A	150_L	0.951	1.00
114_A	117_L	0.946	1.00
108_I	112_E	0.941	1.00
130_I	210_G	0.935	1.00
109_E	113_D	0.929	1.00
62_V	72_V	0.924	1.00
11_G	15_Y	0.920	1.00
149_T	201_I	0.919	1.00
71_K	74_L	0.914	1.00
3_L	23_L	0.913	1.00
203_T	206_T	0.910	1.00
245_G	249_C	0.909	1.00
91_H	212_L	0.905	1.00
168_K	171_D	0.904	1.00
156_R	163_T	0.902	1.00
166_S	170_E	0.878	1.00
103_E	191_K	0.877	1.00
39_D	43_G	0.876	1.00
70_K	74_L	0.875	1.00
144_K	147_K	0.875	1.00
47_L	51_I	0.874	1.00
14_A	271_V	0.874	1.00
18_N	275_I	0.873	1.00
168_K	172_L	0.872	1.00
66_D	70_K	0.870	1.00
145_G	148_I	0.870	1.00
184_V	200_E	0.866	1.00
39_D	44_M	0.864	1.00
230_L	239_E	0.864	1.00
111_L	114_A	0.860	1.00
75_D	78_K	0.859	1.00
132_G	157_L	0.853	1.00
114_A	118_K	0.853	1.00
74_L	77_S	0.847	1.00
69_N	79_E	0.845	1.00
264_A	268_G	0.842	1.00
136_G	152_Q	0.838	1.00
64_K	85_L	0.836	1.00
65_I	85_L	0.833	1.00
110_T	114_A	0.833	1.00
85_L	243_V	0.832	1.00
106_H	120_R	0.831	1.00
86_I	271_V	0.826	1.00
250_V	267_A	0.826	1.00
245_G	250_V	0.826	1.00
151_V	184_V	0.825	1.00
4_I	14_A	0.815	1.00
151_V	181_M	0.815	1.00
271_V	274_N	0.813	1.00
129_I	140_A	0.809	1.00
109_E	117_L	0.805	1.00
16_N	20_E	0.804	1.00
192_D	202_K	0.802	1.00
236_K	244_Y	0.795	1.00
23_L	80_L	0.793	1.00
112_E	116_E	0.789	1.00
35_P	42_C	0.781	1.00
41_I	44_M	0.777	1.00
42_C	45_K	0.776	1.00
43_G	46_K	0.775	1.00
170_E	180_L	0.771	1.00
110_T	115_I	0.771	1.00
151_V	196_T	0.770	1.00
130_I	208_F	0.769	1.00
236_K	274_N	0.768	1.00
152_Q	159_P	0.766	1.00
25_V	82_Y	0.765	1.00
144_K	176_L	0.764	1.00
130_I	186_A	0.762	1.00
108_I	111_L	0.761	1.00
2_I	86_I	0.758	1.00
34_T	38_I	0.753	1.00
25_V	62_V	0.752	1.00
103_E	106_H	0.745	1.00
67_F	70_K	0.745	1.00
24_V	58_I	0.743	1.00
109_E	112_E	0.742	1.00
115_I	118_K	0.741	1.00
244_Y	271_V	0.739	1.00
244_Y	275_I	0.738	1.00
23_L	56_K	0.737	1.00
156_R	170_E	0.736	1.00
108_I	114_A	0.734	1.00
40_F	43_G	0.732	1.00
101_A	208_F	0.730	1.00
60_G	63_Q	0.729	1.00
19_K	54_Y	0.728	1.00
15_Y	55_K	0.727	1.00
3_L	26_D	0.726	1.00
95_L	101_A	0.725	1.00
126_D	203_T	0.718	1.00
152_Q	155_N	0.716	1.00
89_L	217_I	0.715	1.00
13_S	268_G	0.712	1.00
72_V	75_D	0.711	1.00
128_T	206_T	0.711	1.00
44_M	47_L	0.708	1.00
166_S	169_A	0.705	1.00
225_K	228_R	0.702	1.00
52_V	55_K	0.700	1.00
23_L	27_R	0.698	1.00
236_K	240_Y	0.695	1.00
64_K	70_K	0.694	1.00
62_V	65_I	0.692	1.00
48_E	51_I	0.692	1.00
14_A	272_M	0.690	1.00
120_R	146_K	0.690	1.00
43_G	47_L	0.689	1.00
11_G	88_S	0.684	1.00
125_K	146_K	0.682	1.00
269_R	273_K	0.682	1.00
58_I	80_L	0.681	1.00
140_A	148_I	0.680	1.00
165_S	168_K	0.679	1.00
235_L	274_N	0.678	1.00
226_N	251_T	0.677	1.00
169_A	173_L	0.673	1.00
95_L	102_K	0.672	1.00
140_A	178_V	0.669	1.00
223_A	229_L	0.667	1.00
196_T	200_E	0.666	1.00
216_Q	220_N	0.665	1.00
195_V	198_Y	0.665	1.00
87_V	217_I	0.665	1.00
237_S	240_Y	0.664	1.00
150_L	180_L	0.664	1.00
100_G	103_E	0.664	1.00
13_S	265_V	0.661	1.00
96_P	101_A	0.661	1.00
13_S	17_Q	0.659	1.00
253_E	259_M	0.657	1.00
139_L	142_N	0.657	1.00
40_F	44_M	0.656	1.00
174_R	179_N	0.655	1.00
144_K	177_G	0.653	1.00
10_A	88_S	0.652	1.00
246_A	268_G	0.648	1.00
7_G	31_F	0.647	1.00
141_G	176_L	0.646	1.00
266_A	269_R	0.646	1.00
109_E	114_A	0.645	1.00
113_D	117_L	0.643	1.00
122_N	125_K	0.642	1.00
173_L	180_L	0.642	1.00
39_D	45_K	0.642	1.00
266_A	270_V	0.641	1.00
25_V	28_K	0.638	1.00
40_F	46_K	0.630	1.00
107_K	113_D	0.630	1.00
137_V	173_L	0.630	1.00
45_K	49_D	0.628	1.00
95_L	107_K	0.627	1.00
72_V	77_S	0.625	1.00
62_V	74_L	0.623	1.00
35_P	39_D	0.621	1.00
260_T	264_A	0.618	1.00
98_L	101_A	0.618	1.00
24_V	27_R	0.614	1.00
73_I	77_S	0.612	1.00
128_T	149_T	0.611	1.00
169_A	172_L	0.608	1.00
179_N	182_L	0.608	1.00
13_S	16_N	0.608	1.00
67_F	242_D	0.607	1.00
129_I	136_G	0.606	1.00
246_A	275_I	0.606	1.00
94_N	97_R	0.605	1.00
131_G	136_G	0.603	1.00
218_V	221_L	0.601	1.00
116_E	119_R	0.598	1.00
144_K	178_V	0.597	1.00
217_I	221_L	0.597	1.00
38_I	43_G	0.597	1.00
34_T	37_I	0.596	1.00
71_K	78_K	0.595	1.00
16_N	53_K	0.594	1.00
115_I	119_R	0.593	1.00
40_F	45_K	0.593	1.00
195_V	199_G	0.593	1.00
133_G	211_G	0.592	1.00
99_K	102_K	0.590	1.00
189_I	194_V	0.588	1.00
117_L	205_L	0.587	1.00
228_R	259_M	0.587	1.00
23_L	66_D	0.585	1.00
262_D	266_A	0.584	1.00
157_L	166_S	0.581	1.00
35_P	40_F	0.577	1.00
94_N	210_G	0.577	1.00
260_T	263_I	0.577	1.00
154_R	159_P	0.576	1.00
109_E	115_I	0.575	1.00
139_L	207_I	0.573	1.00
26_D	29_D	0.568	1.00
221_L	240_Y	0.566	1.00
3_L	85_L	0.565	1.00
43_G	48_E	0.565	1.00
41_I	46_K	0.564	1.00
164_A	167_K	0.563	1.00
96_P	208_F	0.563	1.00
219_G	222_H	0.563	1.00
87_V	243_V	0.560	1.00
120_R	205_L	0.560	1.00
135_T	209_A	0.559	1.00
223_A	240_Y	0.557	1.00
248_D	264_A	0.555	1.00
47_L	50_I	0.555	1.00
26_D	31_F	0.554	1.00
23_L	58_I	0.553	1.00
95_L	208_F	0.552	1.00
131_G	211_G	0.550	1.00
60_G	78_K	0.549	1.00
102_K	106_H	0.547	1.00
107_K	110_T	0.547	1.00
112_E	117_L	0.547	1.00
35_P	38_I	0.542	1.00
38_I	42_C	0.541	1.00
14_A	18_N	0.541	1.00
93_Q	96_P	0.540	1.00
116_E	120_R	0.535	1.00
225_K	231_V	0.534	1.00
82_Y	242_D	0.534	1.00
230_L	233_K	0.533	1.00
68_K	81_T	0.533	1.00
202_K	205_L	0.531	1.00
65_I	217_I	0.531	1.00
10_A	86_I	0.526	1.00
108_I	113_D	0.526	1.00
156_R	167_K	0.526	1.00
2_I	84_K	0.526	1.00
34_T	46_K	0.524	1.00
17_Q	272_M	0.522	1.00
187_I	190_K	0.521	1.00
9_F	13_S	0.516	1.00
40_F	47_L	0.516	1.00
25_V	74_L	0.515	1.00
137_V	157_L	0.514	1.00
135_T	139_L	0.513	1.00
54_Y	57_V	0.513	1.00
13_S	269_R	0.513	1.00
260_T	267_A	0.513	1.00
21_N	272_M	0.512	1.00
226_N	230_L	0.511	1.00
98_L	189_I	0.510	1.00
127_I	207_I	0.508	1.00
56_K	59_L	0.506	1.00
18_N	276_L	0.506	1.00
106_H	109_E	0.503	1.00
183_G	197_S	0.502	1.00
125_K	205_L	0.502	1.00
139_L	209_A	0.500	1.00
14_A	275_I	0.500	1.00
68_K	242_D	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
4g6hA	2	0.9909	100	0.302	Contact Map
4nwzA	2	0.9879	100	0.348	Contact Map
1ojtA	2	0.9637	100	0.367	Contact Map
3l8kA	3	0.9607	100	0.378	Contact Map
3kljA	1	0.9607	100	0.38	Contact Map
3h8lA	2	0.8852	100	0.381	Contact Map
1lvlA	2	0.9517	100	0.381	Contact Map
2a8xA	2	0.9607	100	0.382	Contact Map
3urhA	2	0.9728	100	0.383	Contact Map
2yquA	2	0.9637	100	0.383	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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