YPPC - BACSU - GREMLIN Contacts

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YPPC - Uncharacterized protein YppC

UniProt:	P39791	Sequences: MNVQEQQAIRKLLSRIERQTKMKNADNISRTNAYKAFYDRHPEIKWSLLASFVSRNAGWSMTDLKGSLFQLGLRERQQKWFFLAYERANWLIFSDAYPQLLLYHWSKRVGKPLFHLLHVFGVSQFMSEEWTRFWHERNTERLMYALIINEQNTIQTPIIQNPSFKKNVFDTIPFYLSDWFHFNTVIFPSSNGFFYGISVKRFSKAEERIRLGKQLSQLLFKPELFSSFYHFLHTVPHTGSRFDMEKMIGITKRTSPMLRTCYPELIHSLDGTKTDWFHGKIKKTFFRREELPKQIELTDWYLHKKRQLHALFAVEQWLKK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	320 (307)
Sequences:	200 (169)
Seq/√Len:	9.6

BACSU - YPPC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
40_R	104_H	4.952	1.00
50_A	100_L	4.499	0.99
117_L	122_V	4.084	0.99
152_N	205_A	4.052	0.99
106_S	114_F	3.754	0.98
114_F	134_W	3.670	0.97
155_Q	160_Q	3.175	0.94
50_A	154_I	3.127	0.94
224_L	228_F	3.022	0.92
106_S	112_P	2.909	0.91
37_F	44_I	2.907	0.91
52_F	232_L	2.901	0.91
13_L	120_F	2.791	0.89
88_A	185_V	2.639	0.86
238_T	243_D	2.476	0.82
106_S	134_W	2.368	0.79
100_L	154_I	2.293	0.76
126_M	133_F	2.265	0.75
88_A	231_F	2.237	0.74
41_H	104_H	2.223	0.74
106_S	115_H	2.192	0.73
85_Y	157_P	2.191	0.73
48_L	52_F	2.164	0.72
59_W	66_G	2.159	0.72
50_A	199_V	2.131	0.71
26_D	259_R	2.126	0.70
74_R	288_R	2.097	0.69
172_I	308_L	2.086	0.69
52_F	187_F	2.057	0.68
105_W	109_V	1.987	0.65
96_A	146_L	1.981	0.65
112_P	134_W	1.964	0.64
90_W	267_H	1.929	0.63
59_W	301_Y	1.907	0.62
148_I	159_I	1.895	0.61
45_K	139_T	1.834	0.58
182_F	307_Q	1.820	0.58
107_K	218_L	1.801	0.57
145_A	275_D	1.798	0.57
50_A	96_A	1.787	0.56
35_K	51_S	1.777	0.56
148_I	278_H	1.757	0.55
39_D	233_H	1.754	0.55
129_E	141_R	1.747	0.55
26_D	264_E	1.742	0.54
66_G	70_Q	1.733	0.54
44_I	90_W	1.712	0.53
50_A	147_I	1.677	0.52
148_I	152_N	1.675	0.51
13_L	296_E	1.616	0.49
231_F	304_K	1.607	0.48
154_I	158_I	1.604	0.48
177_S	237_H	1.586	0.47
45_K	57_A	1.585	0.47
23_K	33_A	1.553	0.46
52_F	244_M	1.536	0.45
21_K	47_S	1.529	0.45
10_R	162_P	1.525	0.45
237_H	243_D	1.512	0.44
105_W	180_F	1.496	0.43
23_K	218_L	1.475	0.42
177_S	200_K	1.473	0.42
102_L	174_F	1.471	0.42
68_L	312_F	1.460	0.42
38_Y	244_M	1.447	0.41
37_F	134_W	1.443	0.41
112_P	218_L	1.441	0.41
14_S	74_R	1.434	0.41
145_A	186_I	1.432	0.41
308_L	312_F	1.408	0.40
62_T	258_L	1.407	0.40
51_S	262_Y	1.403	0.39
245_E	262_Y	1.375	0.38
70_Q	78_Q	1.373	0.38
51_S	305_K	1.371	0.38
32_N	35_K	1.370	0.38
157_P	245_E	1.370	0.38
48_L	232_L	1.368	0.38
72_G	311_L	1.362	0.38
52_F	228_F	1.350	0.37
112_P	115_H	1.342	0.37
85_Y	262_Y	1.332	0.36
114_F	120_F	1.329	0.36
305_K	309_H	1.327	0.36
13_L	107_K	1.326	0.36
100_L	147_I	1.300	0.35
25_A	264_E	1.294	0.35
198_S	304_K	1.290	0.35
50_A	152_N	1.279	0.34
96_A	147_I	1.264	0.34
147_I	154_I	1.255	0.33
37_F	104_H	1.230	0.32
65_K	261_C	1.226	0.32
48_L	120_F	1.213	0.32
108_R	201_R	1.208	0.31
112_P	131_T	1.198	0.31
29_S	57_A	1.194	0.31
87_R	91_L	1.194	0.31
106_S	120_F	1.191	0.31
49_L	215_L	1.189	0.31
59_W	70_Q	1.175	0.30
200_K	211_L	1.175	0.30
48_L	248_I	1.155	0.29
8_A	137_R	1.153	0.29
23_K	191_N	1.145	0.29
29_S	143_M	1.125	0.28
226_S	268_S	1.123	0.28
17_E	159_I	1.122	0.28
181_H	198_S	1.120	0.28
104_H	122_V	1.117	0.28
29_S	259_R	1.116	0.28
104_H	107_K	1.115	0.28
90_W	169_F	1.110	0.28
65_K	78_Q	1.101	0.27
75_E	164_F	1.099	0.27
115_H	235_V	1.099	0.27
68_L	78_Q	1.093	0.27
111_K	137_R	1.092	0.27
60_S	183_N	1.092	0.27
171_T	214_Q	1.091	0.27
107_K	135_H	1.091	0.27
26_D	189_S	1.074	0.26
32_N	236_P	1.073	0.26
216_S	255_S	1.067	0.26
167_N	248_I	1.064	0.26
51_S	216_S	1.055	0.26
26_D	57_A	1.053	0.26
44_I	267_H	1.049	0.26
44_I	292_P	1.047	0.25
220_F	256_P	1.045	0.25
187_F	228_F	1.037	0.25
255_S	262_Y	1.036	0.25
36_A	205_A	1.035	0.25
104_H	261_C	1.034	0.25
199_V	243_D	1.023	0.25
84_A	211_L	1.017	0.24
48_L	177_S	1.016	0.24
68_L	169_F	1.015	0.24
97_Y	135_H	1.008	0.24
85_Y	88_A	1.007	0.24
16_I	47_S	1.004	0.24
12_L	28_I	1.000	0.24
70_Q	108_R	0.999	0.24
62_T	296_E	0.992	0.24
107_K	230_H	0.989	0.24
84_A	189_S	0.988	0.24
45_K	216_S	0.987	0.23
51_S	245_E	0.986	0.23
85_Y	185_V	0.985	0.23
57_A	199_V	0.981	0.23
100_L	199_V	0.980	0.23
48_L	201_R	0.980	0.23
8_A	144_Y	0.979	0.23
157_P	262_Y	0.978	0.23
45_K	262_Y	0.977	0.23
245_E	255_S	0.977	0.23
153_T	157_P	0.966	0.23
164_F	168_V	0.964	0.23
68_L	218_L	0.964	0.23
41_H	107_K	0.960	0.23
100_L	146_L	0.958	0.23
157_P	184_T	0.955	0.22
85_Y	216_S	0.955	0.22
14_S	236_P	0.948	0.22
66_G	301_Y	0.947	0.22
216_S	249_G	0.946	0.22
161_N	174_F	0.944	0.22
73_L	104_H	0.943	0.22
104_H	218_L	0.939	0.22
83_L	164_F	0.938	0.22
162_P	223_E	0.937	0.22
85_Y	246_K	0.934	0.22
113_L	237_H	0.934	0.22
87_R	162_P	0.933	0.22
38_Y	171_T	0.927	0.22
8_A	218_L	0.923	0.21
186_I	222_P	0.923	0.21
243_D	258_L	0.920	0.21
245_E	304_K	0.919	0.21
66_G	174_F	0.917	0.21
181_H	211_L	0.916	0.21
84_A	153_T	0.914	0.21
43_E	133_F	0.913	0.21
195_Y	231_F	0.910	0.21
81_F	231_F	0.906	0.21
39_D	170_D	0.903	0.21
180_F	301_Y	0.902	0.21
94_S	98_P	0.898	0.21
229_Y	263_P	0.897	0.21
104_H	117_L	0.895	0.21
71_L	309_H	0.889	0.20
141_R	181_H	0.889	0.20
107_K	197_I	0.887	0.20
26_D	84_A	0.884	0.20
164_F	313_A	0.876	0.20
12_L	40_R	0.874	0.20
111_K	186_I	0.872	0.20
13_L	115_H	0.870	0.20
210_R	214_Q	0.869	0.20
110_G	268_S	0.869	0.20
74_R	79_K	0.865	0.20
102_L	270_D	0.859	0.20
136_E	173_P	0.858	0.20
29_S	225_F	0.857	0.20
41_H	111_K	0.856	0.20
57_A	211_L	0.856	0.20
242_F	251_T	0.852	0.19
94_S	153_T	0.851	0.19
90_W	186_I	0.851	0.19
186_I	277_F	0.850	0.19
94_S	270_D	0.844	0.19
126_M	275_D	0.843	0.19
51_S	157_P	0.842	0.19
29_S	244_M	0.839	0.19
259_R	267_H	0.834	0.19
253_R	280_K	0.828	0.19
192_G	228_F	0.824	0.19
84_A	245_E	0.824	0.19
48_L	224_L	0.824	0.19
186_I	282_K	0.824	0.19
44_I	159_I	0.823	0.19
142_L	209_I	0.821	0.19
45_K	171_T	0.821	0.19
59_W	286_F	0.820	0.19
215_L	232_L	0.818	0.18
176_L	307_Q	0.815	0.18
181_H	307_Q	0.814	0.18
51_S	249_G	0.809	0.18
84_A	262_Y	0.805	0.18
300_W	307_Q	0.804	0.18
14_S	18_R	0.803	0.18
90_W	181_H	0.801	0.18
182_F	214_Q	0.801	0.18
10_R	186_I	0.801	0.18
111_K	170_D	0.799	0.18
297_L	311_L	0.798	0.18
44_I	129_E	0.795	0.18
216_S	262_Y	0.793	0.18
12_L	21_K	0.793	0.18
94_S	143_M	0.787	0.18
38_Y	199_V	0.786	0.18
41_H	168_V	0.783	0.18
170_D	303_H	0.779	0.17
181_H	200_K	0.779	0.17
73_L	82_F	0.779	0.17
186_I	315_E	0.778	0.17
26_D	262_Y	0.776	0.17
51_S	85_Y	0.775	0.17
132_R	137_R	0.774	0.17
156_T	292_P	0.773	0.17
122_V	273_K	0.772	0.17
147_I	223_E	0.770	0.17
249_G	262_Y	0.768	0.17
176_L	184_T	0.767	0.17
62_T	255_S	0.767	0.17
200_K	224_L	0.766	0.17
157_P	255_S	0.765	0.17
25_A	204_K	0.763	0.17
37_F	267_H	0.761	0.17
28_I	187_F	0.759	0.17
174_F	235_V	0.757	0.17
10_R	206_E	0.756	0.17
101_L	113_L	0.754	0.17
25_A	128_E	0.753	0.17
20_T	36_A	0.752	0.17
10_R	277_F	0.752	0.17
157_P	216_S	0.750	0.17
165_K	310_A	0.745	0.17
138_N	251_T	0.744	0.17
218_L	277_F	0.740	0.16
79_K	182_F	0.738	0.16
61_M	243_D	0.738	0.16
85_Y	305_K	0.737	0.16
229_Y	266_I	0.734	0.16
136_E	172_I	0.733	0.16
177_S	189_S	0.733	0.16
157_P	285_F	0.730	0.16
59_W	239_G	0.727	0.16
291_L	301_Y	0.727	0.16
82_F	113_L	0.727	0.16
51_S	118_H	0.726	0.16
202_F	212_G	0.723	0.16
104_H	177_S	0.719	0.16
225_F	284_T	0.718	0.16
27_N	30_R	0.717	0.16
27_N	34_Y	0.717	0.16
30_R	34_Y	0.717	0.16
78_Q	229_Y	0.714	0.16
156_T	228_F	0.709	0.16
75_E	233_H	0.709	0.16
82_F	180_F	0.708	0.16
96_A	100_L	0.707	0.16
265_L	282_K	0.707	0.16
285_F	310_A	0.705	0.16
21_K	111_K	0.705	0.16
182_F	300_W	0.703	0.16
218_L	289_E	0.700	0.15
148_I	273_K	0.700	0.15
90_W	304_K	0.699	0.15
309_H	312_F	0.699	0.15
216_S	264_E	0.698	0.15
181_H	300_W	0.697	0.15
72_G	315_E	0.696	0.15
216_S	245_E	0.695	0.15
154_I	197_I	0.692	0.15
181_H	304_K	0.691	0.15
87_R	153_T	0.690	0.15
37_F	41_H	0.690	0.15
194_F	220_F	0.685	0.15
36_A	162_P	0.684	0.15
154_I	176_L	0.682	0.15
97_Y	110_G	0.680	0.15
35_K	232_L	0.678	0.15
32_N	36_A	0.678	0.15
189_S	216_S	0.676	0.15
84_A	157_P	0.675	0.15
19_Q	135_H	0.670	0.15
75_E	290_E	0.668	0.15
50_A	88_A	0.666	0.15
26_D	82_F	0.665	0.15
88_A	222_P	0.661	0.15
44_I	186_I	0.657	0.14
17_E	189_S	0.657	0.14
302_L	311_L	0.656	0.14
18_R	156_T	0.651	0.14
105_W	108_R	0.651	0.14
195_Y	228_F	0.650	0.14
9_I	48_L	0.647	0.14
57_A	96_A	0.646	0.14
172_I	186_I	0.645	0.14
82_F	238_T	0.642	0.14
124_Q	137_R	0.642	0.14
70_Q	204_K	0.642	0.14
81_F	304_K	0.641	0.14
48_L	110_G	0.640	0.14
25_A	139_T	0.640	0.14
66_G	255_S	0.640	0.14
62_T	107_K	0.639	0.14
230_H	293_K	0.637	0.14
145_A	162_P	0.636	0.14
170_D	203_S	0.635	0.14
182_F	298_T	0.635	0.14
26_D	51_S	0.634	0.14
23_K	35_K	0.634	0.14
90_W	141_R	0.633	0.14
66_G	298_T	0.631	0.14
22_M	29_S	0.631	0.14
246_K	314_V	0.629	0.14
36_A	137_R	0.629	0.14
129_E	189_S	0.628	0.14
123_S	275_D	0.628	0.14
17_E	132_R	0.625	0.14
8_A	296_E	0.623	0.14
232_L	246_K	0.623	0.14
120_F	148_I	0.617	0.14
166_K	213_K	0.617	0.14
37_F	167_N	0.616	0.14
201_R	207_E	0.616	0.14
233_H	248_I	0.616	0.14
129_E	245_E	0.615	0.14
241_R	276_W	0.610	0.13
87_R	123_S	0.608	0.13
240_S	256_P	0.606	0.13
248_I	308_L	0.605	0.13
76_R	204_K	0.603	0.13
197_I	214_Q	0.602	0.13
198_S	305_K	0.600	0.13
73_L	164_F	0.599	0.13
270_D	281_I	0.599	0.13
198_S	224_L	0.599	0.13
112_P	182_F	0.598	0.13
300_W	303_H	0.597	0.13
70_Q	174_F	0.596	0.13
185_V	306_R	0.593	0.13
250_I	264_E	0.592	0.13
192_G	300_W	0.591	0.13
270_D	273_K	0.590	0.13
68_L	193_F	0.589	0.13
231_F	298_T	0.588	0.13
110_G	292_P	0.587	0.13
18_R	170_D	0.586	0.13
51_S	304_K	0.586	0.13
69_F	180_F	0.584	0.13
91_L	102_L	0.584	0.13
94_S	176_L	0.580	0.13
248_I	251_T	0.580	0.13
41_H	80_W	0.578	0.13
31_T	34_Y	0.578	0.13
27_N	31_T	0.578	0.13
181_H	298_T	0.578	0.13
102_L	165_K	0.576	0.13
11_K	97_Y	0.574	0.13
12_L	135_H	0.574	0.13
112_P	223_E	0.573	0.13
135_H	242_F	0.573	0.13
82_F	243_D	0.572	0.13
137_R	142_L	0.572	0.13
146_L	177_S	0.572	0.13
15_R	19_Q	0.569	0.13
36_A	118_H	0.568	0.13
187_F	244_M	0.566	0.13
16_I	20_T	0.564	0.13
159_I	178_D	0.563	0.13
145_A	286_F	0.562	0.12
38_Y	286_F	0.562	0.12
40_R	298_T	0.562	0.12
252_K	314_V	0.562	0.12
82_F	177_S	0.561	0.12
23_K	97_Y	0.560	0.12
295_I	305_K	0.558	0.12
174_F	237_H	0.558	0.12
87_R	161_N	0.556	0.12
185_V	304_K	0.556	0.12
178_D	187_F	0.555	0.12
12_L	16_I	0.553	0.12
51_S	195_Y	0.553	0.12
20_T	301_Y	0.553	0.12
13_L	190_S	0.546	0.12
185_V	231_F	0.545	0.12
178_D	301_Y	0.545	0.12
88_A	263_P	0.543	0.12
137_R	194_F	0.540	0.12
67_S	142_L	0.539	0.12
246_K	262_Y	0.538	0.12
45_K	128_E	0.537	0.12
71_L	120_F	0.537	0.12
166_K	201_R	0.536	0.12
138_N	277_F	0.535	0.12
183_N	297_L	0.535	0.12
68_L	158_I	0.535	0.12
194_F	217_Q	0.534	0.12
37_F	200_K	0.534	0.12
72_G	186_I	0.534	0.12
69_F	217_Q	0.531	0.12
211_L	300_W	0.531	0.12
157_P	246_K	0.530	0.12
14_S	39_D	0.529	0.12
37_F	301_Y	0.528	0.12
158_I	256_P	0.528	0.12
107_K	113_L	0.526	0.12
148_I	205_A	0.525	0.12
13_L	248_I	0.523	0.12
232_L	240_S	0.523	0.12
13_L	39_D	0.520	0.12
82_F	271_G	0.518	0.12
157_P	264_E	0.518	0.12
152_N	282_K	0.518	0.12
81_F	145_A	0.517	0.12
221_K	267_H	0.516	0.12
19_Q	112_P	0.516	0.12
10_R	81_F	0.514	0.12
143_M	216_S	0.514	0.12
74_R	281_I	0.511	0.12
206_E	285_F	0.510	0.12
69_F	199_V	0.510	0.12
10_R	40_R	0.508	0.11
236_P	286_F	0.505	0.11
50_A	143_M	0.503	0.11
302_L	305_K	0.501	0.11
286_F	296_E	0.500	0.11

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
3t06A	1	0.1375	9.6	0.983	Contact Map
2y9mA	1	0.1812	9.3	0.983	Contact Map
3wctA	2	0.3906	6.3	0.984	Contact Map
3g46A	2	0.3781	5.3	0.985	Contact Map
2dt7B	1	0.2469	5.1	0.985	Contact Map
3upsA	2	0.2094	4.3	0.985	Contact Map
2zs0A	2	0.3719	4.2	0.985	Contact Map
1ow5A	1	0.0625	3.7	0.986	Contact Map
3wctB	3	0.3875	3.6	0.986	Contact Map
4lctA	2	0.2156	3.3	0.986	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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