FOLD - BACSU - GREMLIN Contacts

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FOLD - Bifunctional protein FolD

UniProt:	P54382	Sequences: MTATIIDGKETAREKREQLAKEVEELKKQGVTPGLAVILIGDDPASHSYVRGKKKAAETMGMNFKLDQFDSSLTEAELLSIIDQYNQDPEFHGILVQLPLPDHISEKAVIERISPDKDVDGFHPLNVGKMLLGEDTFLPCTPHGIVELLKKTNIDLSGKEVVVVGRSNIVGKPVGQLLLNENATVTYCHSRTENITEHTKKADILVVAVGRANFISADQIKEGAVVIDVGVNRLENGKLCGDVEFEGAKEKASFITPVPGGVGPMTITMLAHNTVKSAKRTLS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	283 (276)
Sequences:	4749 (2914)
Seq/√Len:	175.4

ECOLI - FOLD
BACSU - FOLD
HALSA - FOLD

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
22_E	279_K	3.968	1.00
150_K	181_E	3.412	1.00
83_D	112_R	3.182	1.00
160_E	201_K	3.168	1.00
244_E	247_G	3.099	1.00
75_E	108_A	2.946	1.00
194_N	197_E	2.826	1.00
14_E	151_K	2.710	1.00
160_E	198_H	2.687	1.00
81_I	84_Q	2.677	1.00
164_V	215_I	2.610	1.00
34_G	65_K	2.467	1.00
7_D	10_E	2.467	1.00
79_L	112_R	2.318	1.00
31_V	92_H	2.262	1.00
157_S	182_N	2.245	1.00
209_V	214_F	2.229	1.00
222_E	251_K	2.167	1.00
67_D	81_I	2.162	1.00
83_D	87_Q	2.113	1.00
56_A	267_I	2.100	1.00
16_R	59_T	2.069	1.00
217_A	247_G	2.060	1.00
73_L	78_L	2.038	1.00
205_L	220_I	2.028	1.00
213_N	244_E	2.020	1.00
27_K	32_T	2.014	1.00
137_F	277_S	1.912	1.00
175_G	187_Y	1.902	1.00
216_S	219_Q	1.856	1.00
34_G	63_N	1.851	1.00
147_E	150_K	1.831	1.00
5_I	245_F	1.810	1.00
225_V	253_S	1.810	1.00
157_S	191_R	1.805	1.00
220_I	248_A	1.797	1.00
122_F	169_I	1.790	1.00
161_V	178_L	1.775	1.00
42_D	47_H	1.766	1.00
146_V	181_E	1.763	1.00
156_L	204_I	1.749	1.00
96_V	109_V	1.741	1.00
245_F	255_I	1.727	1.00
199_T	205_L	1.716	1.00
20_A	24_E	1.709	1.00
196_T	200_K	1.692	1.00
147_E	272_H	1.680	1.00
48_S	239_L	1.667	1.00
198_H	201_K	1.666	1.00
19_L	275_V	1.644	1.00
234_L	238_K	1.617	1.00
11_T	152_T	1.600	1.00
60_M	271_A	1.580	1.00
203_D	221_K	1.572	1.00
226_V	243_V	1.556	1.00
131_L	176_Q	1.550	1.00
243_V	248_A	1.528	1.00
138_L	177_L	1.528	1.00
216_S	244_E	1.526	1.00
39_L	47_H	1.522	1.00
179_L	187_Y	1.492	1.00
147_E	269_M	1.444	1.00
16_R	56_A	1.429	1.00
69_F	73_L	1.425	1.00
159_K	193_E	1.420	1.00
199_T	219_Q	1.419	1.00
147_E	151_K	1.399	1.00
4_T	254_F	1.380	1.00
197_E	201_K	1.375	1.00
216_S	247_G	1.372	1.00
163_V	174_V	1.370	1.00
69_F	81_I	1.357	1.00
75_E	79_L	1.357	1.00
155_D	159_K	1.357	1.00
143_H	276_K	1.353	1.00
205_L	215_I	1.352	1.00
75_E	105_S	1.327	1.00
74_T	77_E	1.326	1.00
162_V	188_C	1.325	1.00
25_E	29_Q	1.317	1.00
143_H	272_H	1.316	1.00
18_Q	151_K	1.316	1.00
246_E	249_K	1.307	1.00
48_S	52_G	1.302	1.00
6_I	152_T	1.301	1.00
188_C	198_H	1.301	1.00
19_L	60_M	1.291	1.00
221_K	224_A	1.285	1.00
65_K	91_F	1.282	1.00
21_K	24_E	1.274	1.00
154_I	254_F	1.274	1.00
217_A	251_K	1.272	1.00
213_N	240_C	1.264	1.00
166_R	182_N	1.261	1.00
54_K	66_L	1.258	1.00
23_V	62_M	1.253	1.00
217_A	248_A	1.244	1.00
11_T	151_K	1.244	1.00
188_C	192_T	1.227	1.00
15_K	19_L	1.223	1.00
63_N	91_F	1.219	1.00
188_C	195_I	1.211	1.00
36_A	67_D	1.209	1.00
42_D	71_S	1.204	1.00
162_V	202_A	1.198	1.00
63_N	90_E	1.183	1.00
54_K	58_E	1.177	1.00
9_K	13_R	1.167	1.00
166_R	190_S	1.159	1.00
213_N	246_E	1.154	1.00
51_R	55_K	1.148	1.00
105_S	108_A	1.146	1.00
39_L	68_Q	1.143	1.00
162_V	198_H	1.143	1.00
98_L	110_I	1.139	1.00
62_M	275_V	1.137	1.00
127_V	131_L	1.133	1.00
36_A	91_F	1.132	1.00
13_R	17_E	1.132	1.00
25_E	28_K	1.117	1.00
220_I	224_A	1.111	1.00
75_E	104_I	1.104	1.00
196_T	219_Q	1.103	1.00
65_K	88_D	1.100	1.00
200_K	251_K	1.097	1.00
17_E	20_A	1.094	1.00
17_E	21_K	1.089	1.00
72_S	77_E	1.086	1.00
36_A	85_Y	1.085	1.00
24_E	28_K	1.080	1.00
182_N	191_R	1.076	1.00
32_T	63_N	1.058	1.00
248_A	255_I	1.051	1.00
159_K	204_I	1.049	1.00
211_R	214_F	1.047	1.00
47_H	68_Q	1.044	1.00
10_E	14_E	1.042	0.99
76_A	80_S	1.040	0.99
209_V	232_N	1.039	0.99
31_V	278_A	1.032	0.99
161_V	183_A	1.030	0.99
21_K	25_E	1.019	0.99
38_I	85_Y	1.016	0.99
196_T	218_D	1.011	0.99
42_D	68_Q	1.005	0.99
6_I	254_F	1.000	0.99
79_L	108_A	0.998	0.99
234_L	240_C	0.998	0.99
212_A	234_L	0.989	0.99
57_A	271_A	0.983	0.99
47_H	51_R	0.980	0.99
86_N	114_S	0.979	0.99
111_E	124_P	0.971	0.99
56_A	271_A	0.971	0.99
80_S	84_Q	0.970	0.99
67_D	84_Q	0.968	0.99
143_H	147_E	0.965	0.99
144_G	265_M	0.958	0.99
57_A	62_M	0.953	0.99
15_K	268_T	0.950	0.99
145_I	229_V	0.940	0.99
77_E	80_S	0.933	0.99
58_E	63_N	0.931	0.99
172_K	179_L	0.931	0.99
6_I	11_T	0.931	0.99
129_K	134_E	0.926	0.99
164_V	209_V	0.917	0.99
184_T	192_T	0.910	0.99
247_G	250_E	0.907	0.99
50_V	97_Q	0.906	0.99
52_G	55_K	0.903	0.99
190_S	209_V	0.903	0.99
152_T	254_F	0.901	0.99
19_L	268_T	0.899	0.99
79_L	83_D	0.896	0.98
16_R	268_T	0.896	0.98
133_G	172_K	0.894	0.98
56_A	60_M	0.888	0.98
18_Q	272_H	0.887	0.98
9_K	260_G	0.882	0.98
84_Q	88_D	0.880	0.98
11_T	14_E	0.880	0.98
156_L	183_A	0.879	0.98
164_V	205_L	0.874	0.98
11_T	148_L	0.873	0.98
125_L	129_K	0.869	0.98
22_E	275_V	0.868	0.98
104_I	109_V	0.867	0.98
138_L	143_H	0.866	0.98
149_L	152_T	0.865	0.98
35_L	119_V	0.864	0.98
135_D	276_K	0.864	0.98
186_T	198_H	0.864	0.98
225_V	254_F	0.862	0.98
146_V	156_L	0.860	0.98
92_H	278_A	0.859	0.98
234_L	237_G	0.857	0.98
85_Y	94_I	0.855	0.98
232_N	240_C	0.850	0.98
34_G	91_F	0.849	0.98
15_K	269_M	0.847	0.98
55_K	59_T	0.846	0.98
37_V	64_F	0.845	0.98
79_L	109_V	0.842	0.98
197_E	200_K	0.841	0.98
215_I	219_Q	0.837	0.98
168_N	172_K	0.834	0.98
160_E	186_T	0.833	0.98
67_D	85_Y	0.830	0.97
14_E	18_Q	0.817	0.97
96_V	113_I	0.812	0.97
54_K	68_Q	0.808	0.97
182_N	189_H	0.807	0.97
182_N	190_S	0.806	0.97
148_L	256_T	0.805	0.97
36_A	65_K	0.802	0.97
264_P	267_I	0.801	0.97
18_Q	21_K	0.795	0.97
146_V	150_K	0.795	0.97
26_L	30_G	0.791	0.97
160_E	193_E	0.791	0.97
143_H	269_M	0.790	0.97
107_K	134_E	0.790	0.97
248_A	251_K	0.788	0.97
123_H	126_N	0.787	0.97
245_F	249_K	0.786	0.97
148_L	265_M	0.785	0.97
213_N	234_L	0.779	0.96
272_H	276_K	0.774	0.96
130_M	138_L	0.770	0.96
6_I	227_I	0.769	0.96
196_T	199_T	0.769	0.96
140_C	269_M	0.767	0.96
212_A	240_C	0.765	0.96
145_I	227_I	0.764	0.96
73_L	81_I	0.761	0.96
212_A	231_V	0.759	0.96
206_V	229_V	0.759	0.96
207_V	243_V	0.756	0.96
233_R	239_L	0.752	0.96
164_V	207_V	0.751	0.96
207_V	232_N	0.749	0.95
13_R	59_T	0.747	0.95
24_E	27_K	0.738	0.95
79_L	104_I	0.737	0.95
19_L	23_V	0.725	0.95
223_G	252_A	0.725	0.95
62_M	271_A	0.724	0.95
18_Q	147_E	0.723	0.94
12_A	16_R	0.720	0.94
174_V	206_V	0.716	0.94
22_E	272_H	0.713	0.94
23_V	26_L	0.711	0.94
14_E	17_E	0.711	0.94
82_I	109_V	0.711	0.94
48_S	231_V	0.707	0.94
125_L	136_T	0.706	0.94
48_S	51_R	0.703	0.94
26_L	31_V	0.703	0.94
52_G	267_I	0.702	0.94
37_V	54_K	0.697	0.93
70_D	73_L	0.692	0.93
107_K	111_E	0.689	0.93
157_S	193_E	0.684	0.93
18_Q	22_E	0.683	0.93
154_I	225_V	0.683	0.93
111_E	129_K	0.679	0.92
40_I	78_L	0.678	0.92
26_L	275_V	0.673	0.92
166_R	189_H	0.670	0.92
26_L	278_A	0.668	0.92
98_L	106_E	0.667	0.92
146_V	161_V	0.665	0.92
163_V	185_V	0.664	0.92
85_Y	91_F	0.663	0.92
78_L	109_V	0.662	0.91
269_M	272_H	0.662	0.91
78_L	104_I	0.660	0.91
55_K	58_E	0.660	0.91
57_A	64_F	0.657	0.91
19_L	22_E	0.657	0.91
38_I	81_I	0.652	0.91
4_T	152_T	0.649	0.91
154_I	204_I	0.649	0.91
54_K	64_F	0.649	0.91
228_D	241_G	0.649	0.91
77_E	81_I	0.648	0.91
124_P	132_L	0.648	0.91
149_L	156_L	0.647	0.91
178_L	206_V	0.643	0.90
94_I	113_I	0.641	0.90
27_K	31_V	0.640	0.90
224_A	253_S	0.638	0.90
176_Q	179_L	0.637	0.90
207_V	215_I	0.636	0.90
223_G	253_S	0.635	0.90
133_G	180_N	0.634	0.90
163_V	178_L	0.633	0.90
142_P	174_V	0.631	0.89
226_V	248_A	0.631	0.89
149_L	154_I	0.630	0.89
65_K	90_E	0.628	0.89
73_L	104_I	0.628	0.89
161_V	174_V	0.627	0.89
108_A	112_R	0.626	0.89
11_T	147_E	0.626	0.89
37_V	66_L	0.625	0.89
48_S	233_R	0.625	0.89
23_V	60_M	0.625	0.89
53_K	97_Q	0.623	0.89
205_L	226_V	0.623	0.89
10_E	13_R	0.620	0.89
127_V	132_L	0.620	0.89
148_L	264_P	0.619	0.89
224_A	252_A	0.618	0.88
7_D	260_G	0.616	0.88
23_V	275_V	0.616	0.88
115_P	123_H	0.614	0.88
215_I	220_I	0.612	0.88
23_V	27_K	0.611	0.88
52_G	231_V	0.610	0.88
80_S	83_D	0.610	0.88
196_T	216_S	0.610	0.88
98_L	122_F	0.606	0.87
20_A	59_T	0.605	0.87
124_P	127_V	0.604	0.87
26_L	32_T	0.604	0.87
16_R	60_M	0.603	0.87
22_E	25_E	0.602	0.87
162_V	199_T	0.602	0.87
119_V	277_S	0.600	0.87
45_A	233_R	0.594	0.86
211_R	216_S	0.592	0.86
13_R	16_R	0.590	0.86
50_V	53_K	0.590	0.86
119_V	274_T	0.589	0.86
15_K	272_H	0.586	0.86
246_E	250_E	0.585	0.86
82_I	86_N	0.583	0.85
220_I	252_A	0.583	0.85
148_L	262_V	0.582	0.85
58_E	62_M	0.581	0.85
8_G	12_A	0.580	0.85
156_L	181_E	0.579	0.85
15_K	147_E	0.578	0.85
228_D	259_P	0.576	0.85
87_Q	114_S	0.572	0.84
167_S	258_V	0.571	0.84
217_A	250_E	0.570	0.84
164_V	199_T	0.569	0.84
243_V	255_I	0.569	0.84
184_T	188_C	0.568	0.84
190_S	211_R	0.567	0.84
126_N	136_T	0.566	0.84
40_I	100_L	0.564	0.83
170_V	174_V	0.561	0.83
249_K	255_I	0.559	0.83
78_L	100_L	0.559	0.83
227_I	262_V	0.555	0.83
157_S	190_S	0.554	0.82
132_L	168_N	0.550	0.82
115_P	125_L	0.546	0.81
39_L	50_V	0.546	0.81
271_A	274_T	0.545	0.81
231_V	239_L	0.545	0.81
179_L	189_H	0.544	0.81
6_I	151_K	0.544	0.81
44_P	48_S	0.542	0.81
52_G	56_A	0.541	0.81
38_I	96_V	0.539	0.81
148_L	152_T	0.538	0.81
122_F	127_V	0.538	0.81
34_G	90_E	0.536	0.80
162_V	205_L	0.536	0.80
5_I	249_K	0.535	0.80
231_V	258_V	0.535	0.80
44_P	233_R	0.534	0.80
38_I	82_I	0.534	0.80
212_A	232_N	0.533	0.80
172_K	180_N	0.533	0.80
130_M	135_D	0.533	0.80
129_K	132_L	0.532	0.80
46_S	97_Q	0.531	0.80
199_T	215_I	0.531	0.80
53_K	264_P	0.529	0.79
67_D	73_L	0.528	0.79
149_L	178_L	0.527	0.79
159_K	225_V	0.527	0.79
222_E	253_S	0.526	0.79
175_G	179_L	0.525	0.79
17_E	59_T	0.524	0.79
23_V	30_G	0.524	0.79
151_K	154_I	0.523	0.79
200_K	218_D	0.523	0.79
111_E	134_E	0.523	0.79
166_R	191_R	0.519	0.78
176_Q	180_N	0.519	0.78
93_G	277_S	0.519	0.78
50_V	95_L	0.519	0.78
56_A	59_T	0.518	0.78
130_M	136_T	0.518	0.78
190_S	214_F	0.515	0.78
165_G	230_G	0.515	0.78
199_T	220_I	0.513	0.77
235_E	238_K	0.513	0.77
154_I	159_K	0.512	0.77
231_V	234_L	0.511	0.77
29_Q	87_Q	0.511	0.77
129_K	136_T	0.505	0.76
213_N	216_S	0.503	0.76
172_K	176_Q	0.502	0.76
146_V	149_L	0.502	0.76
57_A	60_M	0.502	0.76
100_L	104_I	0.500	0.76

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
4cjxA	2	0.9965	100	0.277	Contact Map
2c2xA	2	0.9823	100	0.277	Contact Map
4a5oA	2	1	100	0.284	Contact Map
3l07A	2	0.9965	100	0.288	Contact Map
1b0aA	2	0.9965	100	0.293	Contact Map
4a26A	2	0.9965	100	0.297	Contact Map
3p2oA	2	0.9894	100	0.31	Contact Map
4b4uA	2	0.9929	100	0.314	Contact Map
1a4iA	2	1	100	0.327	Contact Map
1edzA	2	0.9435	100	0.416	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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