YJJA - BACSU - GREMLIN Contacts

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YJJA - Uncharacterized protein YjjA

UniProt:	O34394	Sequences: MGKGLLGKRVAIGGSRKTEEISTIIEKQGGIPVIRPLQGTVYLAEKQVEPDLRTFAEEKADWVIFTTGIGLETLVDMAEKIGLKDEFLQAIRQAKAACRGYKTLSALKKLGITPEASDEDGTTRGLIRSLEPHDFSGKTVMVQLHGEKAPALMAFLEEKGASVLPILPYQHIPPEEETVERLCRELMNDEVDAVCFTTAIQVRSLFDFAKGRGYINEVKKVFEERAIAAAVGKVTAEALREEGITRLLAPEIERMGAMIVELAKYYEEKE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	270 (240)
Sequences:	4199 (3170)
Seq/√Len:	204.6

ECOLI - HEM4
BACSU - YJJA HEM4 NASF
HALSA - Q9HMY3
SULSO - Q980U3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
25_I	30_G	4.422	1.00
230_A	236_A	4.060	1.00
60_A	164_L	3.749	1.00
146_G	170_Q	3.420	1.00
199_A	238_A	3.152	1.00
236_A	249_A	2.765	1.00
139_T	162_S	2.525	1.00
62_W	97_A	2.493	1.00
9_R	31_I	2.473	1.00
60_A	141_M	2.420	1.00
155_F	158_E	2.369	1.00
193_A	229_A	2.324	1.00
144_L	165_P	2.312	1.00
98_C	104_L	2.248	1.00
203_R	238_A	2.222	1.00
41_V	172_I	2.208	1.00
75_V	110_L	2.175	1.00
24_I	28_Q	2.170	1.00
41_V	170_Q	2.143	1.00
49_E	77_M	2.139	1.00
61_D	138_K	2.077	1.00
22_S	34_I	2.031	1.00
127_I	155_F	2.022	1.00
202_V	239_L	1.999	1.00
174_P	204_S	1.935	1.00
230_A	249_A	1.905	1.00
116_A	129_S	1.894	1.00
228_A	244_I	1.892	1.00
24_I	256_G	1.882	1.00
39_G	174_P	1.858	1.00
96_A	112_I	1.854	1.00
230_A	239_L	1.848	1.00
65_F	71_L	1.815	1.00
72_E	106_A	1.808	1.00
144_L	148_K	1.764	1.00
12_I	18_T	1.745	1.00
131_E	159_K	1.744	1.00
123_T	152_L	1.736	1.00
193_A	262_L	1.733	1.00
12_I	22_S	1.726	1.00
17_K	69_I	1.706	1.00
11_A	191_V	1.669	1.00
237_E	241_E	1.652	1.00
62_W	95_K	1.649	1.00
237_E	240_R	1.647	1.00
62_W	140_V	1.636	1.00
236_A	240_R	1.618	1.00
106_A	109_K	1.610	1.00
206_F	242_E	1.606	1.00
22_S	32_P	1.561	1.00
153_M	157_E	1.560	1.00
40_T	69_I	1.559	1.00
40_T	171_H	1.559	1.00
28_Q	263_A	1.543	1.00
150_P	154_A	1.542	1.00
203_R	242_E	1.529	1.00
122_T	125_G	1.529	1.00
135_F	138_K	1.505	1.00
97_A	126_L	1.503	1.00
124_R	149_A	1.498	1.00
65_F	74_L	1.493	1.00
135_F	161_A	1.472	1.00
239_L	246_R	1.464	1.00
248_L	261_E	1.437	1.00
229_A	248_L	1.429	1.00
196_F	205_L	1.415	1.00
229_A	258_M	1.408	1.00
253_E	257_A	1.404	1.00
120_D	125_G	1.403	1.00
139_T	164_L	1.400	1.00
73_T	168_P	1.397	1.00
228_A	239_L	1.384	1.00
42_Y	73_T	1.372	1.00
154_A	157_E	1.365	1.00
250_P	257_A	1.350	1.00
197_T	201_Q	1.336	1.00
196_F	202_V	1.335	1.00
68_G	102_K	1.324	1.00
25_I	32_P	1.313	1.00
195_C	258_M	1.302	1.00
119_E	129_S	1.301	1.00
39_G	172_I	1.296	1.00
153_M	165_P	1.292	1.00
146_G	167_L	1.276	1.00
238_A	241_E	1.270	1.00
239_L	244_I	1.262	1.00
95_K	115_E	1.249	1.00
26_E	32_P	1.240	1.00
227_I	248_L	1.240	1.00
9_R	33_V	1.237	1.00
54_T	59_K	1.233	1.00
231_V	235_T	1.217	1.00
22_S	26_E	1.211	1.00
238_A	242_E	1.209	1.00
61_D	139_T	1.206	1.00
59_K	139_T	1.200	1.00
252_I	257_A	1.195	1.00
232_G	235_T	1.179	1.00
98_C	107_L	1.179	1.00
23_T	27_K	1.178	1.00
173_P	207_D	1.172	1.00
98_C	117_S	1.171	1.00
50_P	54_T	1.148	1.00
233_K	253_E	1.146	1.00
199_A	234_V	1.144	1.00
23_T	26_E	1.140	1.00
171_H	200_I	1.140	1.00
193_A	227_I	1.135	1.00
134_D	138_K	1.130	1.00
196_F	228_A	1.124	1.00
104_L	108_K	1.116	1.00
180_E	184_R	1.105	1.00
142_V	153_M	1.090	1.00
123_T	127_I	1.084	1.00
116_A	126_L	1.072	1.00
64_I	130_L	1.039	1.00
254_R	257_A	1.039	1.00
206_F	244_I	1.027	1.00
186_L	221_V	1.024	1.00
71_L	106_A	1.017	1.00
37_L	204_S	1.015	1.00
151_A	155_F	1.005	1.00
104_L	117_S	1.002	1.00
184_R	188_N	0.995	1.00
14_G	201_Q	0.986	1.00
173_P	204_S	0.985	1.00
33_V	191_V	0.981	1.00
63_V	96_A	0.976	1.00
21_I	195_C	0.967	1.00
8_K	192_D	0.965	1.00
12_I	195_C	0.957	0.99
148_K	165_P	0.938	0.99
147_E	200_I	0.934	0.99
124_R	151_A	0.930	0.99
68_G	106_A	0.922	0.99
19_E	34_I	0.919	0.99
63_V	143_Q	0.907	0.99
155_F	159_K	0.886	0.99
140_V	161_A	0.884	0.99
24_I	27_K	0.882	0.99
185_E	190_E	0.881	0.99
108_K	113_T	0.879	0.99
70_G	143_Q	0.871	0.99
195_C	229_A	0.868	0.99
46_K	49_E	0.865	0.99
199_A	235_T	0.864	0.99
76_D	110_L	0.859	0.99
49_E	81_I	0.858	0.99
54_T	164_L	0.857	0.99
43_L	170_Q	0.856	0.99
38_Q	204_S	0.852	0.99
181_R	185_E	0.851	0.99
62_W	116_A	0.851	0.99
49_E	53_R	0.839	0.99
137_G	161_A	0.838	0.99
72_E	76_D	0.834	0.99
99_R	123_T	0.829	0.98
33_V	185_E	0.825	0.98
210_K	213_G	0.824	0.98
63_V	94_A	0.821	0.98
38_Q	171_H	0.820	0.98
39_G	175_E	0.818	0.98
123_T	151_A	0.817	0.98
195_C	262_L	0.816	0.98
71_L	103_T	0.811	0.98
147_E	171_H	0.809	0.98
70_G	142_V	0.807	0.98
204_S	208_F	0.804	0.98
16_R	19_E	0.800	0.98
43_L	167_L	0.799	0.98
40_T	73_T	0.795	0.98
47_Q	50_P	0.795	0.98
233_K	237_E	0.792	0.98
54_T	58_E	0.791	0.98
37_L	205_L	0.790	0.98
12_I	32_P	0.785	0.98
10_V	193_A	0.784	0.98
239_L	243_G	0.782	0.98
105_S	109_K	0.781	0.98
19_E	23_T	0.781	0.98
12_I	25_I	0.780	0.98
101_Y	121_G	0.774	0.98
12_I	34_I	0.772	0.98
122_T	233_K	0.771	0.98
111_G	114_P	0.770	0.98
194_V	228_A	0.770	0.98
250_P	261_E	0.766	0.97
50_P	53_R	0.766	0.97
141_M	166_I	0.764	0.97
48_V	168_P	0.762	0.97
108_K	114_P	0.760	0.97
37_L	208_F	0.757	0.97
107_L	112_I	0.757	0.97
260_V	264_K	0.755	0.97
123_T	171_H	0.754	0.97
240_R	245_T	0.753	0.97
69_I	73_T	0.752	0.97
143_Q	168_P	0.751	0.97
98_C	114_P	0.751	0.97
176_E	208_F	0.747	0.97
229_A	261_E	0.746	0.97
74_L	143_Q	0.741	0.97
149_A	234_V	0.734	0.97
18_T	34_I	0.732	0.97
102_K	105_S	0.729	0.97
21_I	25_I	0.725	0.96
183_C	187_M	0.720	0.96
79_E	82_G	0.718	0.96
72_E	109_K	0.716	0.96
127_I	159_K	0.716	0.96
95_K	133_H	0.716	0.96
38_Q	198_T	0.715	0.96
64_I	126_L	0.715	0.96
73_T	76_D	0.711	0.96
154_A	158_E	0.710	0.96
142_V	152_L	0.710	0.96
142_V	163_V	0.708	0.96
99_R	126_L	0.705	0.96
150_P	165_P	0.705	0.96
14_G	103_T	0.698	0.96
157_E	163_V	0.695	0.96
251_E	260_V	0.694	0.96
227_I	247_L	0.686	0.95
118_D	121_G	0.684	0.95
156_L	161_A	0.684	0.95
24_I	259_I	0.682	0.95
106_A	110_L	0.680	0.95
42_Y	76_D	0.679	0.95
144_L	150_P	0.675	0.95
65_F	96_A	0.671	0.95
43_L	46_K	0.668	0.94
21_I	197_T	0.664	0.94
121_G	125_G	0.664	0.94
62_W	130_L	0.663	0.94
53_R	83_L	0.663	0.94
35_R	176_E	0.662	0.94
16_R	34_I	0.661	0.94
121_G	254_R	0.653	0.94
147_E	167_L	0.652	0.94
144_L	153_M	0.649	0.94
131_E	155_F	0.648	0.94
51_D	164_L	0.648	0.94
125_G	129_S	0.646	0.93
65_F	143_Q	0.645	0.93
104_L	114_P	0.645	0.93
182_L	185_E	0.640	0.93
151_A	154_A	0.637	0.93
145_H	167_L	0.634	0.93
144_L	167_L	0.633	0.93
97_A	129_S	0.632	0.93
63_V	141_M	0.632	0.93
26_E	34_I	0.631	0.93
74_L	168_P	0.631	0.93
97_A	197_T	0.627	0.92
105_S	108_K	0.625	0.92
193_A	248_L	0.625	0.92
62_W	129_S	0.623	0.92
126_L	130_L	0.621	0.92
64_I	152_L	0.621	0.92
123_T	148_K	0.621	0.92
234_V	253_E	0.619	0.92
143_Q	166_I	0.618	0.92
119_E	125_G	0.615	0.92
259_I	262_L	0.612	0.92
260_V	263_A	0.611	0.91
197_T	255_M	0.611	0.91
148_K	171_H	0.608	0.91
200_I	232_G	0.606	0.91
48_V	77_M	0.605	0.91
257_A	261_E	0.605	0.91
17_K	68_G	0.602	0.91
189_D	225_R	0.602	0.91
61_D	93_Q	0.599	0.91
96_A	107_L	0.598	0.91
62_W	138_K	0.598	0.91
233_K	249_A	0.597	0.90
77_M	80_K	0.596	0.90
38_Q	200_I	0.593	0.90
64_I	97_A	0.593	0.90
127_I	130_L	0.592	0.90
142_V	148_K	0.590	0.90
250_P	253_E	0.589	0.90
49_E	80_K	0.586	0.90
229_A	247_L	0.586	0.90
97_A	118_D	0.585	0.90
181_R	184_R	0.584	0.90
9_R	192_D	0.584	0.90
122_T	234_V	0.583	0.89
203_R	241_E	0.581	0.89
128_R	155_F	0.578	0.89
145_H	200_I	0.577	0.89
47_Q	51_D	0.572	0.89
157_E	162_S	0.570	0.88
122_T	253_E	0.566	0.88
13_G	201_Q	0.566	0.88
145_H	171_H	0.565	0.88
228_A	247_L	0.565	0.88
67_T	103_T	0.563	0.88
11_A	182_L	0.562	0.88
134_D	161_A	0.556	0.87
251_E	264_K	0.553	0.87
65_F	103_T	0.553	0.87
127_I	151_A	0.553	0.87
10_V	13_G	0.553	0.87
65_F	98_C	0.552	0.87
231_V	250_P	0.551	0.87
112_I	115_E	0.551	0.87
240_R	246_R	0.549	0.86
26_E	31_I	0.546	0.86
132_P	159_K	0.544	0.86
148_K	151_A	0.540	0.86
207_D	210_K	0.539	0.85
142_V	197_T	0.539	0.85
38_Q	201_Q	0.536	0.85
95_K	138_K	0.536	0.85
14_G	17_K	0.533	0.85
123_T	234_V	0.532	0.85
99_R	103_T	0.531	0.85
67_T	99_R	0.530	0.85
99_R	145_H	0.530	0.85
142_V	147_E	0.530	0.85
97_A	116_A	0.528	0.84
202_V	242_E	0.527	0.84
91_I	94_A	0.527	0.84
220_K	224_E	0.526	0.84
186_L	191_V	0.525	0.84
29_G	32_P	0.525	0.84
203_R	207_D	0.524	0.84
19_E	73_T	0.523	0.84
13_G	36_P	0.523	0.84
101_Y	254_R	0.522	0.84
187_M	221_V	0.522	0.84
240_R	249_A	0.520	0.83
30_G	263_A	0.519	0.83
64_I	156_L	0.516	0.83
259_I	263_A	0.516	0.83
201_Q	204_S	0.515	0.83
149_A	171_H	0.513	0.83
21_I	102_K	0.512	0.82
71_L	107_L	0.512	0.82
12_I	21_I	0.512	0.82
66_T	70_G	0.511	0.82
51_D	166_I	0.511	0.82
21_I	255_M	0.510	0.82
143_Q	148_K	0.510	0.82
194_V	226_A	0.510	0.82
114_P	117_S	0.510	0.82
15_S	201_Q	0.509	0.82
125_G	128_R	0.509	0.82
55_F	60_A	0.509	0.82
246_R	249_A	0.507	0.82
128_R	224_E	0.506	0.82
53_R	81_I	0.504	0.81
55_F	91_I	0.503	0.81
27_K	80_K	0.503	0.81
130_L	159_K	0.502	0.81
37_L	174_P	0.501	0.81
145_H	168_P	0.500	0.81
15_S	40_T	0.500	0.81
123_T	200_I	0.500	0.81

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
3d8tA	1	0.9259	100	0.151	Contact Map
1wcwA	1	0.9296	100	0.162	Contact Map
3re1A	1	0.9222	100	0.174	Contact Map
1jr2A	1	0.9222	100	0.184	Contact Map
4es6A	1	0.9	100	0.197	Contact Map
3mw8A	1	0.8704	100	0.219	Contact Map
3p9zA	1	0.7889	100	0.298	Contact Map
4rk6A	2	0.8556	97.4	0.865	Contact Map
3clkA	2	0.8481	97.2	0.87	Contact Map
3kkeA	2	0.8926	97.1	0.872	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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