DEGV - BACSU - GREMLIN Contacts

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DEGV - Protein DegV

UniProt:	P32436	Sequences: MNIAVVTDSTAYIPKEMREQHQIHMIPLQVVFREETYREEIELDWKSFYEEVKKHNELPTTSQPPIGELVALYEELGKSYDAVISIHLSSGISGTFSSAAAADSMVDNIDVYPFDSEISCLAQGFYALKAAELIKNGASSPEDIIKELEEMKKTVRAYFMVDDLAHLQRGGRLSSAQAFIGSLLKVKPILHFDNKVIVPFEKIRTRKKAISRIYELLDEDASKGLPMRAAVIHANREEEAAKIIEELSAKYPHVEFYNSYFGAVIGTHLGEGALGICWCFK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	281 (274)
Sequences:	4509 (3639)
Seq/√Len:	219.9

BACSU - DEGV YITS

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
244_I	248_S	3.329	1.00
139_S	143_D	3.040	1.00
82_A	110_D	3.011	1.00
218_D	250_K	2.941	1.00
15_K	19_E	2.682	1.00
168_Q	178_A	2.558	1.00
91_G	196_V	2.458	1.00
50_E	54_K	2.381	1.00
237_E	241_A	2.380	1.00
129_K	132_E	2.369	1.00
84_I	141_P	2.364	1.00
138_A	143_D	2.352	1.00
96_F	100_A	2.299	1.00
67_G	71_A	2.183	1.00
44_D	47_S	2.174	1.00
73_Y	85_S	2.158	1.00
86_I	116_S	2.150	1.00
112_Y	141_P	2.145	1.00
38_R	68_E	2.119	1.00
201_E	212_R	2.057	1.00
166_H	271_E	2.054	1.00
5_V	134_I	1.966	1.00
63_Q	94_G	1.924	1.00
77_G	109_I	1.918	1.00
149_E	152_K	1.847	1.00
14_P	17_M	1.846	1.00
38_R	42_E	1.835	1.00
241_A	244_I	1.792	1.00
130_A	148_L	1.787	1.00
236_R	239_E	1.737	1.00
133_L	147_E	1.732	1.00
145_I	149_E	1.721	1.00
168_Q	175_S	1.718	1.00
69_L	99_A	1.685	1.00
133_L	144_I	1.648	1.00
4_A	24_H	1.638	1.00
24_H	75_E	1.633	1.00
29_Q	68_E	1.630	1.00
6_V	72_L	1.629	1.00
24_H	76_L	1.624	1.00
70_V	105_M	1.621	1.00
112_Y	145_I	1.615	1.00
82_A	141_P	1.610	1.00
212_R	215_E	1.602	1.00
35_E	51_E	1.601	1.00
70_V	74_E	1.593	1.00
33_R	57_E	1.590	1.00
46_K	50_E	1.567	1.00
206_R	239_E	1.566	1.00
133_L	138_A	1.565	1.00
49_Y	266_G	1.565	1.00
147_E	150_E	1.560	1.00
146_K	150_E	1.560	1.00
90_S	115_D	1.554	1.00
29_Q	36_T	1.544	1.00
75_E	78_K	1.538	1.00
3_I	134_I	1.528	1.00
16_E	20_Q	1.516	1.00
131_A	135_K	1.495	1.00
6_V	85_S	1.493	1.00
53_K	235_N	1.488	1.00
47_S	50_E	1.487	1.00
132_E	136_N	1.483	1.00
117_E	152_K	1.479	1.00
31_V	36_T	1.474	1.00
156_R	220_D	1.469	1.00
246_E	249_A	1.461	1.00
24_H	72_L	1.421	1.00
74_E	106_V	1.420	1.00
240_A	258_N	1.415	1.00
212_R	216_L	1.405	1.00
31_V	60_T	1.381	1.00
114_F	145_I	1.374	1.00
18_R	25_M	1.374	1.00
138_A	147_E	1.369	1.00
72_L	75_E	1.357	1.00
241_A	245_E	1.353	1.00
114_F	149_E	1.345	1.00
150_E	154_T	1.339	1.00
69_L	95_T	1.338	1.00
26_I	72_L	1.337	1.00
74_E	78_K	1.336	1.00
98_S	102_A	1.334	1.00
114_F	148_L	1.330	1.00
21_H	135_K	1.326	1.00
4_A	80_Y	1.320	1.00
244_I	258_N	1.320	1.00
28_L	95_T	1.318	1.00
133_L	136_N	1.300	1.00
46_K	260_Y	1.297	1.00
100_A	104_S	1.272	1.00
12_Y	262_G	1.271	1.00
118_I	122_A	1.261	1.00
10_T	123_Q	1.260	1.00
242_K	245_E	1.252	1.00
193_D	198_V	1.251	1.00
129_K	147_E	1.251	1.00
82_A	112_Y	1.249	1.00
100_A	103_D	1.249	1.00
245_E	249_A	1.247	1.00
21_H	131_A	1.243	1.00
233_H	236_R	1.232	1.00
7_T	127_A	1.225	1.00
32_F	51_E	1.224	1.00
17_M	21_H	1.223	1.00
218_D	251_Y	1.222	1.00
129_K	133_L	1.219	1.00
83_V	109_I	1.217	1.00
73_Y	87_H	1.209	1.00
160_M	209_A	1.209	1.00
142_E	146_K	1.204	1.00
231_V	240_A	1.200	1.00
7_T	123_Q	1.191	1.00
97_S	100_A	1.187	1.00
215_E	250_K	1.179	1.00
233_H	258_N	1.175	1.00
216_L	219_E	1.174	1.00
6_V	76_L	1.171	1.00
7_T	25_M	1.164	1.00
4_A	76_L	1.161	1.00
53_K	271_E	1.144	1.00
20_Q	135_K	1.143	1.00
138_A	144_I	1.138	1.00
5_V	127_A	1.137	1.00
77_G	106_V	1.129	1.00
47_S	51_E	1.122	1.00
191_H	200_F	1.120	1.00
245_E	248_S	1.118	1.00
23_I	131_A	1.106	1.00
68_E	71_A	1.105	1.00
17_M	128_L	1.079	1.00
241_A	258_N	1.075	1.00
94_G	98_S	1.070	1.00
143_D	146_K	1.069	1.00
269_L	273_A	1.069	1.00
90_S	96_F	1.061	1.00
72_L	76_L	1.058	1.00
175_S	178_A	1.056	1.00
96_F	113_P	1.051	1.00
112_Y	142_E	1.047	1.00
103_D	111_V	1.047	1.00
161_V	167_L	1.045	1.00
126_Y	152_K	1.044	1.00
63_Q	98_S	1.041	1.00
147_E	151_M	1.036	1.00
162_D	187_K	1.028	1.00
86_I	130_A	1.027	1.00
231_V	244_I	1.026	1.00
87_H	96_F	1.020	1.00
3_I	144_I	1.019	1.00
110_D	142_E	1.013	1.00
70_V	106_V	1.013	1.00
228_R	255_E	1.005	1.00
26_I	64_P	1.001	1.00
125_F	230_A	0.997	1.00
215_E	218_D	0.996	1.00
76_L	83_V	0.995	1.00
70_V	102_A	0.991	1.00
112_Y	149_E	0.991	1.00
242_K	246_E	0.985	1.00
99_A	113_P	0.983	1.00
185_K	205_T	0.983	1.00
214_Y	246_E	0.982	1.00
235_N	271_E	0.974	1.00
13_I	124_G	0.974	1.00
190_L	197_I	0.973	1.00
69_L	102_A	0.971	1.00
211_S	215_E	0.970	1.00
246_E	250_K	0.969	1.00
21_H	132_E	0.966	1.00
132_E	228_R	0.966	1.00
211_S	246_E	0.964	1.00
134_I	144_I	0.959	1.00
33_R	56_N	0.957	1.00
141_P	145_I	0.951	1.00
131_A	134_I	0.944	1.00
46_K	235_N	0.941	1.00
16_E	19_E	0.934	1.00
83_V	111_V	0.928	0.99
21_H	128_L	0.926	0.99
91_G	117_E	0.920	0.99
244_I	256_F	0.920	0.99
3_I	84_I	0.909	0.99
126_Y	148_L	0.906	0.99
177_Q	202_K	0.900	0.99
4_A	81_D	0.890	0.99
103_D	113_P	0.887	0.99
233_H	237_E	0.883	0.99
6_V	83_V	0.882	0.99
77_G	110_D	0.878	0.99
191_H	198_V	0.868	0.99
233_H	240_A	0.863	0.99
151_M	154_T	0.861	0.99
232_I	261_F	0.855	0.99
26_I	69_L	0.852	0.99
210_I	243_I	0.850	0.99
240_A	244_I	0.850	0.99
110_D	141_P	0.848	0.99
129_K	151_M	0.848	0.99
28_L	264_V	0.847	0.99
32_F	59_P	0.846	0.99
118_I	192_F	0.844	0.99
220_D	278_W	0.843	0.99
4_A	22_Q	0.841	0.99
49_Y	234_A	0.840	0.99
174_S	177_Q	0.840	0.99
181_G	188_P	0.838	0.99
37_Y	43_L	0.830	0.99
165_A	169_R	0.828	0.99
92_I	119_S	0.827	0.99
66_I	101_A	0.825	0.99
215_E	219_E	0.824	0.99
228_R	257_Y	0.818	0.99
31_V	34_E	0.817	0.99
208_K	211_S	0.817	0.99
94_G	97_S	0.817	0.99
238_E	241_A	0.813	0.99
7_T	11_A	0.812	0.99
232_I	275_G	0.808	0.99
57_E	169_R	0.802	0.99
146_K	149_E	0.801	0.99
52_V	166_H	0.800	0.99
106_V	109_I	0.800	0.99
71_A	75_E	0.798	0.98
238_E	242_K	0.797	0.98
121_L	232_I	0.794	0.98
163_D	166_H	0.794	0.98
10_T	264_V	0.793	0.98
73_Y	99_A	0.791	0.98
164_L	181_G	0.790	0.98
121_L	230_A	0.787	0.98
84_I	114_F	0.780	0.98
193_D	196_V	0.780	0.98
217_L	276_I	0.780	0.98
75_E	79_S	0.777	0.98
122_A	277_C	0.776	0.98
128_L	132_E	0.772	0.98
128_L	131_A	0.771	0.98
6_V	73_Y	0.767	0.98
199_P	202_K	0.767	0.98
139_S	142_E	0.766	0.98
38_R	41_I	0.764	0.98
127_A	131_A	0.763	0.98
239_E	242_K	0.762	0.98
9_S	39_E	0.760	0.98
126_Y	151_M	0.759	0.98
233_H	260_Y	0.754	0.98
141_P	144_I	0.752	0.98
17_M	131_A	0.752	0.98
101_A	104_S	0.750	0.98
189_I	209_A	0.745	0.98
33_R	51_E	0.744	0.98
118_I	157_A	0.738	0.97
170_G	268_H	0.736	0.97
61_T	267_T	0.735	0.97
176_A	179_F	0.735	0.97
67_G	70_V	0.733	0.97
48_F	266_G	0.732	0.97
261_F	266_G	0.722	0.97
5_V	131_A	0.720	0.97
122_A	155_V	0.719	0.97
168_Q	173_L	0.717	0.97
92_I	197_I	0.715	0.97
79_S	109_I	0.715	0.97
43_L	48_F	0.714	0.97
50_E	53_K	0.711	0.97
57_E	60_T	0.711	0.97
69_L	73_Y	0.706	0.97
88_L	92_I	0.703	0.97
234_A	273_A	0.702	0.97
216_L	220_D	0.700	0.97
90_S	117_E	0.696	0.96
142_E	145_I	0.693	0.96
12_Y	120_C	0.693	0.96
158_Y	216_L	0.692	0.96
217_L	221_A	0.691	0.96
59_P	267_T	0.690	0.96
51_E	55_H	0.690	0.96
23_I	127_A	0.685	0.96
208_K	215_E	0.685	0.96
4_A	79_S	0.678	0.96
29_Q	38_R	0.677	0.96
148_L	152_K	0.674	0.96
158_Y	200_F	0.674	0.96
3_I	82_A	0.674	0.96
159_F	275_G	0.673	0.96
150_E	153_K	0.672	0.96
214_Y	250_K	0.671	0.96
22_Q	135_K	0.668	0.95
24_H	78_K	0.665	0.95
217_L	278_W	0.664	0.95
89_S	92_I	0.663	0.95
13_I	18_R	0.662	0.95
30_V	263_A	0.661	0.95
162_D	206_R	0.661	0.95
5_V	130_A	0.660	0.95
130_A	134_I	0.659	0.95
17_M	20_Q	0.659	0.95
243_I	274_L	0.657	0.95
231_V	258_N	0.654	0.95
102_A	106_V	0.654	0.95
85_S	99_A	0.653	0.95
51_E	54_K	0.652	0.95
232_I	277_C	0.650	0.95
218_D	222_S	0.649	0.95
86_I	148_L	0.648	0.95
48_F	263_A	0.642	0.94
97_S	101_A	0.641	0.94
71_A	74_E	0.637	0.94
116_S	123_Q	0.635	0.94
100_A	113_P	0.634	0.94
80_Y	109_I	0.633	0.94
18_R	22_Q	0.633	0.94
27_P	41_I	0.632	0.94
119_S	123_Q	0.630	0.94
76_L	81_D	0.630	0.94
203_I	208_K	0.629	0.94
239_E	274_L	0.627	0.94
101_A	105_M	0.626	0.94
14_P	124_G	0.624	0.94
76_L	79_S	0.623	0.93
119_S	265_I	0.622	0.93
82_A	109_I	0.621	0.93
158_Y	220_D	0.619	0.93
89_S	117_E	0.619	0.93
10_T	88_L	0.619	0.93
77_G	83_V	0.616	0.93
73_Y	111_V	0.614	0.93
77_G	107_D	0.611	0.93
166_H	169_R	0.611	0.93
189_I	203_I	0.608	0.93
159_F	273_A	0.605	0.92
12_Y	39_E	0.604	0.92
98_S	101_A	0.604	0.92
119_S	197_I	0.603	0.92
88_L	119_S	0.602	0.92
214_Y	243_I	0.601	0.92
128_L	257_Y	0.601	0.92
77_G	80_Y	0.596	0.92
162_D	272_G	0.596	0.92
126_Y	155_V	0.595	0.92
203_I	212_R	0.591	0.92
35_E	42_E	0.590	0.92
36_T	42_E	0.589	0.91
177_Q	199_P	0.588	0.91
87_H	113_P	0.587	0.91
156_R	191_H	0.586	0.91
162_D	178_A	0.585	0.91
9_S	28_L	0.584	0.91
84_I	112_Y	0.583	0.91
73_Y	83_V	0.582	0.91
32_F	35_E	0.579	0.91
13_I	23_I	0.579	0.91
116_S	126_Y	0.577	0.91
234_A	261_F	0.576	0.91
84_I	145_I	0.575	0.90
66_I	102_A	0.572	0.90
210_I	274_L	0.571	0.90
65_P	68_E	0.571	0.90
120_C	273_A	0.570	0.90
206_R	209_A	0.569	0.90
159_F	190_L	0.569	0.90
86_I	123_Q	0.569	0.90
79_S	83_V	0.568	0.90
248_S	256_F	0.568	0.90
248_S	255_E	0.565	0.90
128_L	228_R	0.565	0.90
114_F	152_K	0.564	0.90
117_E	195_K	0.563	0.90
159_F	197_I	0.559	0.89
217_L	251_Y	0.555	0.89
165_A	168_Q	0.553	0.89
214_Y	218_D	0.553	0.89
231_V	256_F	0.553	0.89
99_A	102_A	0.549	0.88
84_I	130_A	0.548	0.88
77_G	81_D	0.544	0.88
210_I	246_E	0.539	0.87
221_A	224_G	0.538	0.87
78_K	81_D	0.537	0.87
73_Y	103_D	0.537	0.87
186_V	202_K	0.536	0.87
90_S	97_S	0.533	0.87
14_P	257_Y	0.529	0.86
102_A	105_M	0.528	0.86
209_A	213_I	0.527	0.86
144_I	148_L	0.525	0.86
15_K	18_R	0.523	0.86
200_F	216_L	0.523	0.86
132_E	135_K	0.522	0.86
58_L	166_H	0.520	0.86
184_L	204_R	0.519	0.85
237_E	240_A	0.519	0.85
55_H	59_P	0.518	0.85
86_I	127_A	0.516	0.85
85_S	113_P	0.515	0.85
189_I	201_E	0.514	0.85
18_R	21_H	0.511	0.85
247_L	276_I	0.511	0.85
89_S	195_K	0.511	0.85
179_F	199_P	0.510	0.84
66_I	98_S	0.507	0.84
18_R	40_E	0.506	0.84
124_G	131_A	0.506	0.84
129_K	228_R	0.506	0.84
217_L	247_L	0.503	0.84
160_M	206_R	0.503	0.84
189_I	212_R	0.501	0.83
5_V	86_I	0.500	0.83
15_K	40_E	0.500	0.83
92_I	192_F	0.500	0.83

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
3fysA	1	0.9964	100	-0.008	Contact Map
2dt8A	1	0.9929	100	0.001	Contact Map
3lupA	1	0.9929	100	0.002	Contact Map
1pzxA	1	0.9929	100	0.003	Contact Map
3nyiA	1	0.9893	100	0.017	Contact Map
3pl5A	1	0.9502	100	0.018	Contact Map
2g7zA	3	0.9715	100	0.021	Contact Map
3jr7A	1	0.9751	100	0.031	Contact Map
1mgpA	1	0.9537	100	0.035	Contact Map
3fdjA	1	0.9644	100	0.046	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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