YJBA - BACSU - GREMLIN Contacts

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YJBA - UPF0736 protein YjbA

UniProt:	O31597	Sequences: MLFLHDVWVNWFEGEENGYNVCHFHEWRKEDTVELLDQVPLLRVPSVLFHYIENDLSELPKGLLEDVHQKSYIRKNHERTKLEYCFVVTDGIGILAVDTIGYTIPVRKSRLIPRQEQLVYEMVKDVEPETYEFEPKKLESSKEYHILSLAPEHVRGLTRKERQIKQLMFMALDQLKGLKNRAEIGYWYTEWNPHMYEQIKRMSFEEIWDMLYNETIEGWSDKHLAFCENLIKGQPFFEKLWEMENESKVN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	250 (246)
Sequences:	103 (66)
Seq/√Len:	4.2

BACSU - YJBA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
149_L	200_K	3.453	0.74
41_L	122_M	3.388	0.73
61_K	131_Y	3.300	0.71
88_V	95_L	3.110	0.66
58_E	100_I	3.096	0.66
29_K	35_L	2.807	0.58
202_M	220_S	2.651	0.53
50_H	61_K	2.480	0.48
35_L	112_I	2.405	0.46
85_C	188_Y	2.390	0.45
80_T	240_L	2.279	0.42
149_L	216_I	2.279	0.42
85_C	169_F	2.207	0.40
3_F	40_P	2.192	0.39
5_H	78_E	2.162	0.39
203_S	206_E	2.113	0.37
182_A	200_K	2.103	0.37
2_L	78_E	2.102	0.37
29_K	112_I	2.083	0.36
232_K	235_P	2.047	0.35
169_F	188_Y	2.031	0.35
33_V	192_N	1.925	0.32
2_L	29_K	1.922	0.32
40_P	112_I	1.918	0.32
71_S	179_K	1.900	0.32
243_M	246_E	1.868	0.31
29_K	40_P	1.835	0.30
86_F	97_V	1.819	0.30
67_V	86_F	1.818	0.29
73_I	178_L	1.787	0.29
200_K	240_L	1.780	0.29
104_I	112_I	1.773	0.28
25_H	95_L	1.759	0.28
35_L	40_P	1.759	0.28
94_I	117_Q	1.703	0.27
121_E	178_L	1.700	0.27
143_E	212_Y	1.696	0.27
5_H	32_T	1.673	0.26
212_Y	226_F	1.654	0.26
2_L	122_M	1.651	0.26
89_T	125_D	1.616	0.25
67_V	160_K	1.613	0.25
147_L	170_M	1.611	0.25
167_L	242_E	1.604	0.24
32_T	77_H	1.563	0.24
5_H	42_L	1.553	0.23
5_H	40_P	1.540	0.23
195_M	205_E	1.535	0.23
178_L	212_Y	1.525	0.23
81_K	117_Q	1.518	0.23
5_H	224_L	1.505	0.22
44_V	153_H	1.503	0.22
104_I	243_M	1.484	0.22
41_L	215_T	1.483	0.22
73_I	123_V	1.464	0.22
112_I	204_F	1.443	0.21
178_L	230_L	1.407	0.20
69_Q	81_K	1.401	0.20
81_K	106_V	1.400	0.20
58_E	134_E	1.398	0.20
67_V	230_L	1.394	0.20
135_P	141_S	1.393	0.20
41_L	88_V	1.387	0.20
87_V	144_Y	1.387	0.20
86_F	169_F	1.369	0.20
2_L	35_L	1.366	0.20
87_V	243_M	1.360	0.20
33_V	207_I	1.359	0.20
3_F	71_S	1.352	0.19
4_L	71_S	1.346	0.19
73_I	80_T	1.335	0.19
5_H	77_H	1.328	0.19
3_F	185_G	1.327	0.19
4_L	42_L	1.318	0.19
46_S	90_D	1.312	0.19
134_E	184_I	1.307	0.19
32_T	78_E	1.298	0.18
81_K	94_I	1.298	0.18
97_V	149_L	1.291	0.18
80_T	120_Y	1.279	0.18
73_I	104_I	1.276	0.18
45_P	197_E	1.274	0.18
150_A	225_A	1.272	0.18
87_V	215_T	1.268	0.18
3_F	25_H	1.254	0.18
77_H	112_I	1.250	0.18
61_K	92_I	1.250	0.18
69_Q	82_L	1.239	0.17
136_K	203_S	1.235	0.17
2_L	40_P	1.225	0.17
117_Q	120_Y	1.223	0.17
125_D	184_I	1.215	0.17
43_R	169_F	1.214	0.17
44_V	86_F	1.198	0.17
104_I	179_K	1.195	0.17
132_E	140_S	1.193	0.17
122_M	180_N	1.183	0.16
71_S	78_E	1.175	0.16
146_I	154_V	1.159	0.16
188_Y	222_K	1.159	0.16
42_L	132_E	1.158	0.16
177_G	230_L	1.155	0.16
78_E	112_I	1.147	0.16
5_H	112_I	1.147	0.16
181_R	204_F	1.131	0.16
40_P	104_I	1.129	0.16
59_L	144_Y	1.128	0.16
70_K	85_C	1.114	0.15
77_H	169_F	1.114	0.15
182_A	240_L	1.114	0.15
51_Y	59_L	1.106	0.15
87_V	195_M	1.104	0.15
67_V	88_V	1.103	0.15
77_H	93_G	1.099	0.15
170_M	182_A	1.099	0.15
66_D	213_N	1.094	0.15
5_H	29_K	1.088	0.15
192_N	206_E	1.084	0.15
3_F	32_T	1.074	0.15
74_R	82_L	1.070	0.15
2_L	5_H	1.069	0.15
3_F	112_I	1.065	0.15
5_H	104_I	1.054	0.14
40_P	71_S	1.045	0.14
146_I	237_F	1.042	0.14
5_H	23_H	1.037	0.14
23_H	77_H	1.034	0.14
72_Y	79_R	1.032	0.14
23_H	248_K	1.026	0.14
149_L	237_F	1.024	0.14
77_H	188_Y	1.024	0.14
65_E	141_S	1.022	0.14
5_H	35_L	1.015	0.14
39_V	87_V	1.015	0.14
145_H	208_W	1.008	0.14
50_H	62_G	1.000	0.14
41_L	66_D	0.996	0.14
56_L	85_C	0.993	0.14
100_I	123_V	0.990	0.14
203_S	221_D	0.990	0.14
65_E	129_E	0.988	0.13
73_I	82_L	0.982	0.13
158_T	244_E	0.978	0.13
164_I	167_L	0.972	0.13
35_L	77_H	0.967	0.13
29_K	104_I	0.967	0.13
150_A	243_M	0.963	0.13
2_L	71_S	0.963	0.13
94_I	120_Y	0.950	0.13
45_P	128_P	0.948	0.13
70_K	169_F	0.948	0.13
32_T	71_S	0.946	0.13
202_M	212_Y	0.942	0.13
141_S	152_E	0.941	0.13
44_V	67_V	0.938	0.13
4_L	40_P	0.936	0.13
59_L	243_M	0.935	0.13
32_T	207_I	0.933	0.13
43_R	216_I	0.931	0.13
68_H	150_A	0.917	0.13
176_K	230_L	0.916	0.13
145_H	148_S	0.911	0.12
80_T	200_K	0.907	0.12
4_L	179_K	0.906	0.12
63_L	67_V	0.905	0.12
111_L	212_Y	0.891	0.12
3_F	68_H	0.886	0.12
243_M	247_S	0.885	0.12
51_Y	144_Y	0.885	0.12
4_L	39_V	0.882	0.12
201_R	213_N	0.882	0.12
125_D	246_E	0.880	0.12
80_T	83_E	0.869	0.12
69_Q	76_N	0.868	0.12
166_Q	239_K	0.867	0.12
152_E	231_I	0.864	0.12
73_I	128_P	0.862	0.12
97_V	182_A	0.857	0.12
135_P	201_R	0.856	0.12
171_A	188_Y	0.850	0.12
47_V	130_T	0.847	0.12
97_V	200_K	0.837	0.12
50_H	198_Q	0.835	0.12
129_E	220_S	0.833	0.11
124_K	152_E	0.827	0.11
2_L	123_V	0.826	0.11
46_S	66_D	0.824	0.11
90_D	203_S	0.816	0.11
123_V	246_E	0.813	0.11
154_V	204_F	0.811	0.11
171_A	231_I	0.810	0.11
11_W	27_W	0.809	0.11
11_W	31_D	0.809	0.11
27_W	31_D	0.809	0.11
40_P	204_F	0.801	0.11
95_L	111_L	0.797	0.11
7_V	74_R	0.792	0.11
47_V	139_E	0.791	0.11
129_E	134_E	0.791	0.11
71_S	123_V	0.790	0.11
181_R	184_I	0.788	0.11
12_F	15_E	0.783	0.11
10_N	15_E	0.783	0.11
177_G	229_N	0.777	0.11
62_G	195_M	0.771	0.11
131_Y	222_K	0.766	0.11
29_K	78_E	0.765	0.11
135_P	152_E	0.764	0.11
85_C	90_D	0.755	0.11
200_K	237_F	0.754	0.11
144_Y	151_P	0.754	0.11
77_H	248_K	0.753	0.11
41_L	120_Y	0.751	0.11
200_K	228_E	0.746	0.10
155_R	184_I	0.745	0.10
32_T	247_S	0.744	0.10
42_L	87_V	0.735	0.10
135_P	205_E	0.734	0.10
52_I	59_L	0.732	0.10
96_A	230_L	0.732	0.10
169_F	182_A	0.731	0.10
65_E	215_T	0.722	0.10
130_T	221_D	0.718	0.10
57_S	117_Q	0.718	0.10
139_E	143_E	0.714	0.10
35_L	204_F	0.713	0.10
97_V	129_E	0.712	0.10
195_M	201_R	0.712	0.10
43_R	188_Y	0.710	0.10
4_L	133_F	0.707	0.10
100_I	235_P	0.706	0.10
203_S	217_E	0.705	0.10
200_K	216_I	0.704	0.10
203_S	240_L	0.704	0.10
2_L	103_T	0.703	0.10
139_E	205_E	0.701	0.10
92_I	203_S	0.700	0.10
184_I	201_R	0.697	0.10
167_L	245_N	0.695	0.10
209_D	213_N	0.693	0.10
129_E	231_I	0.693	0.10
40_P	248_K	0.692	0.10
140_S	195_M	0.691	0.10
198_Q	226_F	0.687	0.10
29_K	204_F	0.686	0.10
188_Y	220_S	0.683	0.10
117_Q	182_A	0.682	0.10
136_K	140_S	0.681	0.10
73_I	229_N	0.675	0.10
25_H	70_K	0.674	0.10
35_L	78_E	0.670	0.10
171_A	248_K	0.669	0.10
124_K	184_I	0.668	0.10
92_I	231_I	0.667	0.10
84_Y	160_K	0.667	0.10
32_T	123_V	0.666	0.10
18_G	24_F	0.664	0.10
135_P	195_M	0.663	0.10
194_H	247_S	0.660	0.10
32_T	248_K	0.655	0.09
133_F	230_L	0.654	0.09
39_V	160_K	0.652	0.09
86_F	237_F	0.650	0.09
50_H	93_G	0.649	0.09
184_I	202_M	0.648	0.09
176_K	225_A	0.645	0.09
7_V	18_G	0.644	0.09
43_R	81_K	0.643	0.09
78_E	94_I	0.643	0.09
75_K	244_E	0.642	0.09
90_D	210_M	0.638	0.09
129_E	150_A	0.635	0.09
4_L	29_K	0.635	0.09
104_I	247_S	0.626	0.09
41_L	194_H	0.626	0.09
194_H	221_D	0.621	0.09
61_K	103_T	0.620	0.09
2_L	100_I	0.619	0.09
146_I	207_I	0.618	0.09
46_S	155_R	0.617	0.09
35_L	104_I	0.617	0.09
146_I	200_K	0.614	0.09
23_H	205_E	0.614	0.09
63_L	86_F	0.614	0.09
8_W	24_F	0.613	0.09
97_V	231_I	0.611	0.09
3_F	104_I	0.611	0.09
78_E	123_V	0.609	0.09
203_S	210_M	0.608	0.09
140_S	210_M	0.603	0.09
66_D	129_E	0.602	0.09
61_K	65_E	0.601	0.09
30_E	170_M	0.600	0.09
95_L	123_V	0.600	0.09
4_L	122_M	0.595	0.09
75_K	158_T	0.595	0.09
195_M	198_Q	0.595	0.09
77_H	104_I	0.594	0.09
136_K	155_R	0.590	0.09
10_N	13_E	0.590	0.09
2_L	112_I	0.588	0.09
58_E	235_P	0.584	0.09
129_E	192_N	0.581	0.09
23_H	184_I	0.580	0.09
58_E	201_R	0.580	0.09
9_V	28_R	0.578	0.09
42_L	179_K	0.577	0.09
197_E	224_L	0.577	0.09
81_K	120_Y	0.575	0.09
67_V	97_V	0.575	0.09
140_S	209_D	0.574	0.09
129_E	136_K	0.573	0.09
195_M	210_M	0.572	0.09
146_I	214_E	0.571	0.09
65_E	135_P	0.569	0.09
85_C	182_A	0.569	0.09
67_V	153_H	0.568	0.09
81_K	225_A	0.567	0.09
47_V	92_I	0.566	0.09
103_T	247_S	0.566	0.09
23_H	42_L	0.565	0.09
148_S	208_W	0.564	0.09
61_K	144_Y	0.559	0.09
32_T	73_I	0.558	0.09
199_I	234_Q	0.558	0.09
17_N	151_P	0.556	0.09
144_Y	194_H	0.555	0.09
178_L	217_E	0.555	0.09
146_I	184_I	0.554	0.09
36_L	74_R	0.551	0.08
3_F	247_S	0.551	0.08
38_Q	163_Q	0.550	0.08
197_E	205_E	0.547	0.08
29_K	77_H	0.545	0.08
61_K	194_H	0.544	0.08
65_E	192_N	0.542	0.08
4_L	7_V	0.542	0.08
44_V	129_E	0.542	0.08
200_K	214_E	0.542	0.08
214_E	226_F	0.539	0.08
134_E	139_E	0.539	0.08
33_V	62_G	0.539	0.08
141_S	206_E	0.538	0.08
170_M	239_K	0.537	0.08
10_N	37_D	0.535	0.08
12_F	37_D	0.535	0.08
101_G	148_S	0.535	0.08
132_E	206_E	0.534	0.08
122_M	181_R	0.533	0.08
26_E	31_D	0.530	0.08
11_W	26_E	0.530	0.08
46_S	65_E	0.530	0.08
62_G	120_Y	0.528	0.08
67_V	144_Y	0.528	0.08
135_P	221_D	0.528	0.08
45_P	247_S	0.526	0.08
118_L	158_T	0.524	0.08
222_K	225_A	0.523	0.08
90_D	93_G	0.522	0.08
15_E	37_D	0.519	0.08
194_H	230_L	0.518	0.08
127_E	169_F	0.512	0.08
125_D	155_R	0.511	0.08
2_L	153_H	0.508	0.08
80_T	97_V	0.504	0.08
56_L	202_M	0.502	0.08
172_L	205_E	0.501	0.08
178_L	181_R	0.501	0.08
4_L	35_L	0.500	0.08

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
3ujhA	2	0.36	27.6	0.975	Contact Map
3tz1B	1	0.088	10.9	0.979	Contact Map
2wyoA	2	0.412	10.7	0.979	Contact Map
4i6xA	1	0.288	8.6	0.98	Contact Map
4nzfA	5	0.576	8.1	0.981	Contact Map
4ne3B	2	0.296	7.7	0.981	Contact Map
4qb3A	1	0.412	7.2	0.981	Contact Map
4em6D	2	0.34	6.6	0.981	Contact Map
4uydA	1	0.388	6.4	0.981	Contact Map
1wgpA	1	0.508	6.2	0.982	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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