YTXD - BACSU - GREMLIN Contacts

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YTXD - Uncharacterized protein YtxD

UniProt:	P39063	Sequences: MKRFDYLTPVGFVLGTIIIVIGIISGSGVSGFRSFLDLTSFFIVTGGLCAAVFISFPPSELKKAPSVLKQAFIRQEDNVKDLVKTFVSLSDHARKHGLLSLDDQAREIKDPFLKKGLLLAIDGWDEETIRLVMDSEIAAMEERHRKGRRVFEKAGEFAPAWGMIGTLVGLVLMLKNLNDPHMLGPNMAIALLTTLYGSLLANMVFNPIAAKLEEKTESEIFIKQVMVEGIIGVQSGKNPRNLESQLVVFSSREEWQKQPKQVKTKKGSVHEA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	272 (249)
Sequences:	2330 (1540)
Seq/√Len:	97.6

ECOLI - MOTA
BACSU - YTXD MOTA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
155_G	206_N	3.773	1.00
137_I	227_V	3.743	1.00
92_H	104_Q	3.349	1.00
92_H	100_S	3.262	1.00
22_G	43_I	3.056	1.00
69_K	73_I	3.013	1.00
48_L	154_A	2.900	1.00
151_F	208_I	2.786	1.00
14_L	50_A	2.747	1.00
171_V	192_L	2.706	1.00
110_D	223_K	2.597	1.00
116_G	230_I	2.587	1.00
179_D	182_M	2.524	1.00
144_H	219_E	2.424	1.00
78_N	81_D	2.381	1.00
137_I	220_I	2.334	1.00
152_E	209_A	2.288	1.00
53_F	61_L	2.251	1.00
200_L	205_F	2.190	1.00
115_K	136_E	2.171	1.00
45_T	200_L	2.165	1.00
15_G	203_M	2.163	1.00
64_A	151_F	2.158	1.00
140_M	220_I	2.155	1.00
86_F	242_L	2.066	1.00
48_L	158_A	2.061	1.00
31_G	172_L	2.045	1.00
37_D	40_S	2.014	1.00
8_T	211_K	1.920	1.00
55_S	210_A	1.919	1.00
62_K	66_S	1.909	1.00
71_A	208_I	1.900	1.00
158_A	200_L	1.891	1.00
57_P	60_E	1.859	1.00
144_H	216_T	1.852	1.00
229_G	246_L	1.814	1.00
141_E	220_I	1.800	1.00
34_S	175_K	1.781	1.00
67_V	147_G	1.743	1.00
113_L	226_M	1.734	1.00
58_P	62_K	1.709	1.00
232_G	237_K	1.700	1.00
140_M	144_H	1.647	1.00
32_F	36_L	1.639	1.00
26_G	172_L	1.622	1.00
13_V	17_I	1.611	1.00
130_R	134_D	1.586	1.00
16_T	20_V	1.581	1.00
19_I	47_G	1.550	1.00
41_F	45_T	1.542	1.00
136_E	255_W	1.521	1.00
66_S	69_K	1.516	1.00
130_R	228_E	1.515	1.00
228_E	249_F	1.511	1.00
173_M	191_L	1.488	1.00
84_K	243_E	1.487	1.00
160_A	191_L	1.485	1.00
8_T	71_A	1.485	1.00
61_L	64_A	1.464	1.00
23_I	35_F	1.445	1.00
158_A	205_F	1.445	1.00
8_T	54_I	1.444	1.00
60_E	214_E	1.432	1.00
152_E	213_E	1.423	1.00
52_V	154_A	1.403	0.99
17_I	21_I	1.402	0.99
243_E	247_V	1.391	0.99
240_R	243_E	1.390	0.99
15_G	50_A	1.387	0.99
9_P	13_V	1.372	0.99
88_S	91_D	1.366	0.99
40_S	193_T	1.337	0.99
133_M	230_I	1.320	0.99
19_I	199_L	1.313	0.99
10_V	17_I	1.296	0.99
86_F	229_G	1.272	0.99
104_Q	107_E	1.262	0.99
154_A	205_F	1.244	0.99
182_M	185_P	1.243	0.99
21_I	25_S	1.231	0.99
93_A	101_L	1.219	0.99
92_H	96_H	1.213	0.99
23_I	28_G	1.210	0.98
52_V	61_L	1.203	0.98
163_M	193_T	1.192	0.98
163_M	187_M	1.190	0.98
128_T	237_K	1.188	0.98
64_A	68_L	1.187	0.98
115_K	244_S	1.186	0.98
64_A	150_V	1.175	0.98
167_L	187_M	1.174	0.98
106_R	118_L	1.167	0.98
82_L	226_M	1.156	0.98
144_H	212_L	1.141	0.98
25_S	42_F	1.140	0.98
187_M	198_S	1.118	0.97
17_I	20_V	1.111	0.97
105_A	118_L	1.110	0.97
172_L	186_N	1.107	0.97
160_A	187_M	1.104	0.97
148_R	216_T	1.103	0.97
18_I	50_A	1.099	0.97
166_T	195_L	1.092	0.97
19_I	203_M	1.086	0.97
140_M	216_T	1.074	0.97
187_M	191_L	1.067	0.97
35_F	172_L	1.067	0.97
135_S	139_A	1.064	0.97
120_A	129_I	1.062	0.97
125_D	128_T	1.059	0.96
182_M	186_N	1.040	0.96
16_T	204_V	1.031	0.96
85_T	108_I	1.027	0.96
222_I	226_M	1.023	0.96
183_L	187_M	1.023	0.96
51_A	157_F	1.020	0.96
116_G	133_M	1.009	0.95
199_L	203_M	1.005	0.95
81_D	85_T	0.995	0.95
37_D	189_I	0.995	0.95
10_V	14_L	0.994	0.95
60_E	150_V	0.991	0.95
187_M	193_T	0.987	0.95
68_L	151_F	0.978	0.94
166_T	174_L	0.977	0.94
56_F	149_R	0.977	0.94
92_H	101_L	0.976	0.94
166_T	173_M	0.974	0.94
86_F	124_W	0.966	0.94
211_K	215_K	0.963	0.94
36_L	41_F	0.962	0.94
60_E	146_K	0.959	0.94
68_L	208_I	0.955	0.94
164_I	199_L	0.952	0.94
129_I	234_Q	0.948	0.94
71_A	211_K	0.941	0.93
134_D	227_V	0.936	0.93
119_L	132_V	0.936	0.93
184_G	188_A	0.933	0.93
124_W	132_V	0.931	0.93
185_P	188_A	0.929	0.93
173_M	187_M	0.919	0.92
89_L	117_L	0.917	0.92
25_S	39_T	0.917	0.92
163_M	173_M	0.917	0.92
111_P	114_K	0.911	0.92
91_D	95_K	0.908	0.92
55_S	153_K	0.906	0.92
43_I	168_V	0.898	0.92
82_L	222_I	0.897	0.92
251_S	254_E	0.896	0.91
148_R	213_E	0.889	0.91
74_R	215_K	0.883	0.91
161_W	186_N	0.877	0.91
232_G	245_Q	0.876	0.91
216_T	220_I	0.875	0.90
118_L	244_S	0.872	0.90
62_K	65_P	0.868	0.90
157_F	202_N	0.864	0.90
24_I	32_F	0.861	0.90
185_P	189_I	0.858	0.90
177_L	184_G	0.856	0.90
56_F	153_K	0.855	0.89
252_R	255_W	0.855	0.89
174_L	195_L	0.853	0.89
228_E	245_Q	0.853	0.89
163_M	198_S	0.850	0.89
120_A	234_Q	0.850	0.89
153_K	157_F	0.848	0.89
85_T	113_L	0.835	0.88
151_F	205_F	0.829	0.88
23_I	195_L	0.826	0.88
89_L	101_L	0.824	0.88
179_D	183_L	0.823	0.88
63_K	146_K	0.821	0.87
67_V	71_A	0.820	0.87
33_R	36_L	0.819	0.87
77_D	81_D	0.817	0.87
166_T	192_L	0.815	0.87
87_V	243_E	0.815	0.87
14_L	53_F	0.810	0.87
26_G	191_L	0.807	0.87
232_G	242_L	0.806	0.87
79_V	222_I	0.805	0.86
44_V	199_L	0.802	0.86
151_F	212_L	0.802	0.86
94_R	238_N	0.800	0.86
45_T	49_C	0.799	0.86
160_A	173_M	0.797	0.86
7_L	14_L	0.792	0.86
124_W	129_I	0.789	0.85
77_D	222_I	0.787	0.85
35_F	173_M	0.783	0.85
40_S	166_T	0.781	0.85
200_L	204_V	0.781	0.85
26_G	193_T	0.777	0.84
137_I	223_K	0.775	0.84
183_L	186_N	0.770	0.84
18_I	46_G	0.770	0.84
12_F	16_T	0.768	0.84
180_P	183_L	0.768	0.84
167_L	198_S	0.767	0.84
160_A	193_T	0.767	0.84
54_I	71_A	0.766	0.84
51_A	203_M	0.760	0.83
38_L	41_F	0.760	0.83
148_R	152_E	0.759	0.83
131_L	135_S	0.758	0.83
163_M	167_L	0.756	0.83
143_R	219_E	0.755	0.83
126_E	235_S	0.754	0.83
58_P	61_L	0.753	0.83
88_S	104_Q	0.753	0.83
120_A	230_I	0.751	0.82
237_K	245_Q	0.747	0.82
141_E	216_T	0.746	0.82
109_K	226_M	0.745	0.82
12_F	54_I	0.743	0.82
123_G	236_G	0.741	0.82
160_A	167_L	0.740	0.81
42_F	155_G	0.738	0.81
153_K	156_E	0.734	0.81
52_V	64_A	0.727	0.80
167_L	191_L	0.727	0.80
90_S	229_G	0.726	0.80
137_I	224_Q	0.724	0.80
138_A	141_E	0.723	0.80
87_V	239_P	0.721	0.80
27_S	186_N	0.720	0.80
89_L	230_I	0.719	0.80
16_T	78_N	0.719	0.80
56_F	150_V	0.718	0.79
163_M	191_L	0.717	0.79
31_G	34_S	0.716	0.79
161_W	164_I	0.715	0.79
161_W	185_P	0.708	0.79
180_P	185_P	0.706	0.78
181_H	185_P	0.704	0.78
160_A	163_M	0.694	0.77
66_S	253_E	0.689	0.77
65_P	68_L	0.682	0.76
119_L	237_K	0.680	0.76
155_G	191_L	0.680	0.76
182_M	188_A	0.680	0.76
23_I	163_M	0.679	0.76
161_W	175_K	0.679	0.76
51_A	161_W	0.677	0.75
52_V	150_V	0.676	0.75
48_L	205_F	0.675	0.75
117_L	121_I	0.673	0.75
85_T	104_Q	0.665	0.74
66_S	149_R	0.665	0.74
212_L	219_E	0.660	0.74
59_S	63_K	0.660	0.74
53_F	58_P	0.659	0.73
143_R	212_L	0.658	0.73
166_T	202_N	0.654	0.73
173_M	202_N	0.653	0.73
225_V	249_F	0.652	0.73
128_T	131_L	0.649	0.72
67_V	212_L	0.640	0.71
233_V	242_L	0.640	0.71
60_E	218_S	0.638	0.71
21_I	32_F	0.638	0.71
44_V	203_M	0.638	0.71
139_A	142_E	0.633	0.70
77_D	110_D	0.631	0.70
18_I	35_F	0.631	0.70
166_T	182_M	0.631	0.70
166_T	193_T	0.630	0.70
23_I	168_V	0.628	0.70
146_K	149_R	0.627	0.70
26_G	173_M	0.623	0.69
172_L	175_K	0.623	0.69
193_T	199_L	0.622	0.69
111_P	252_R	0.622	0.69
166_T	187_M	0.619	0.69
231_I	235_S	0.614	0.68
57_P	63_K	0.614	0.68
241_N	244_S	0.612	0.68
91_D	242_L	0.612	0.68
151_F	154_A	0.611	0.68
124_W	248_V	0.610	0.68
99_L	121_I	0.610	0.68
196_Y	202_N	0.609	0.67
152_E	156_E	0.608	0.67
161_W	172_L	0.608	0.67
180_P	184_G	0.608	0.67
131_L	134_D	0.607	0.67
37_D	163_M	0.607	0.67
130_R	235_S	0.606	0.67
44_V	48_L	0.606	0.67
161_W	187_M	0.606	0.67
210_A	213_E	0.603	0.67
93_A	100_S	0.603	0.67
44_V	180_P	0.601	0.66
14_L	17_I	0.598	0.66
135_S	248_V	0.598	0.66
83_V	225_V	0.597	0.66
86_F	233_V	0.597	0.66
71_A	151_F	0.597	0.66
121_I	238_N	0.596	0.66
165_G	193_T	0.595	0.66
76_E	253_E	0.593	0.65
68_L	72_F	0.593	0.65
189_I	196_Y	0.591	0.65
7_L	55_S	0.584	0.64
54_I	57_P	0.583	0.64
205_F	208_I	0.577	0.63
23_I	37_D	0.577	0.63
11_G	53_F	0.575	0.63
167_L	173_M	0.574	0.63
157_F	206_N	0.573	0.63
231_I	245_Q	0.570	0.62
40_S	163_M	0.570	0.62
119_L	248_V	0.569	0.62
233_V	245_Q	0.568	0.62
129_I	246_L	0.568	0.62
120_A	244_S	0.567	0.62
160_A	199_L	0.567	0.62
144_H	147_G	0.565	0.62
139_A	154_A	0.565	0.62
117_L	167_L	0.562	0.61
75_Q	215_K	0.562	0.61
229_G	245_Q	0.562	0.61
96_H	236_G	0.557	0.61
237_K	242_L	0.556	0.60
70_Q	212_L	0.556	0.60
191_L	199_L	0.555	0.60
91_D	240_R	0.553	0.60
68_L	77_D	0.553	0.60
61_L	65_P	0.553	0.60
26_G	39_T	0.553	0.60
105_A	121_I	0.553	0.60
38_L	42_F	0.552	0.60
7_L	211_K	0.552	0.60
93_A	99_L	0.551	0.60
219_E	223_K	0.550	0.60
156_E	172_L	0.550	0.60
90_S	99_L	0.550	0.60
161_W	167_L	0.549	0.60
201_A	206_N	0.548	0.59
173_M	193_T	0.545	0.59
108_I	116_G	0.543	0.59
85_T	109_K	0.542	0.59
68_L	205_F	0.541	0.58
156_E	160_A	0.541	0.58
126_E	231_I	0.540	0.58
70_Q	216_T	0.540	0.58
28_G	168_V	0.538	0.58
226_M	230_I	0.537	0.58
95_K	124_W	0.532	0.57
26_G	156_E	0.532	0.57
19_I	192_L	0.532	0.57
44_V	154_A	0.530	0.57
86_F	246_L	0.528	0.57
70_Q	74_R	0.528	0.57
92_H	125_D	0.527	0.56
102_D	183_L	0.525	0.56
136_E	248_V	0.524	0.56
113_L	231_I	0.521	0.56
161_W	199_L	0.520	0.55
166_T	196_Y	0.520	0.55
71_A	212_L	0.515	0.55
14_L	18_I	0.513	0.54
98_L	236_G	0.513	0.54
24_I	42_F	0.512	0.54
168_V	173_M	0.510	0.54
18_I	22_G	0.509	0.54
127_E	246_L	0.508	0.54
93_A	231_I	0.507	0.54
34_S	172_L	0.505	0.53
15_G	51_A	0.504	0.53
93_A	98_L	0.500	0.53

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
1i5pA	1	0.5074	72.6	0.949	Contact Map
4il3A	1	0.9118	68.6	0.951	Contact Map
4aw6A	2	0.9154	42.4	0.958	Contact Map
3h90A	3	0.4926	18.5	0.965	Contact Map
2qk1A	1	0.7904	15.2	0.966	Contact Map
4m70A	1	0.3603	13.9	0.967	Contact Map
2gyqA	2	0.5368	12.6	0.967	Contact Map
3wozA	1	0.6838	12.2	0.968	Contact Map
3b5dA	2	0.1912	8.5	0.97	Contact Map
1ji6A	1	0.3787	7.7	0.97	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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