FOLD - ECOLI - GREMLIN Contacts

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FOLD - Bifunctional protein FolD

UniProt:	P24186	Sequences: MAAKIIDGKTIAQQVRSEVAQKVQARIAAGLRAPGLAVVLVGSNPASQIYVASKRKACEEVGFVSRSYDLPETTSEAELLELIDTLNADNTIDGILVQLPLPAGIDNVKVLERIHPDKDVDGFHPYNVGRLCQRAPRLRPCTPRGIVTLLERYNIDTFGLNAVVIGASNIVGRPMSMELLLAGCTTTVTHRFTKNLRHHVENADLLIVAVGKPGFIPGDWIKEGAIVIDVGINRLENGKVVGDVVFEDAAKRASYITPVPGGVGPMTVATLIENTLQACVEYHDPQDE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10328
Length:	288 (278)
Sequences:	4783 (2959)
Seq/√Len:	177.5

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_K	280_V	4.153	1.00
151_E	182_A	3.533	1.00
84_D	113_R	3.225	1.00
161_N	202_N	3.188	1.00
245_V	248_D	3.180	1.00
93_D	282_Y	3.149	1.00
76_E	109_K	3.033	1.00
195_N	198_H	2.923	1.00
82_L	85_T	2.696	1.00
14_Q	152_R	2.691	1.00
161_N	199_H	2.663	1.00
165_I	216_I	2.575	1.00
7_D	10_T	2.548	1.00
35_G	66_R	2.431	1.00
80_L	113_R	2.372	1.00
210_V	215_F	2.263	1.00
223_E	252_R	2.181	1.00
68_Y	82_L	2.150	1.00
32_R	93_D	2.133	1.00
57_A	268_V	2.125	1.00
74_T	79_L	2.119	1.00
206_L	221_I	2.117	1.00
84_D	88_A	2.093	1.00
214_G	245_V	2.065	1.00
16_R	60_E	2.039	1.00
218_G	248_D	2.027	1.00
158_F	183_G	1.969	1.00
123_F	170_I	1.941	1.00
176_S	188_V	1.928	1.00
27_I	33_A	1.927	1.00
217_P	220_W	1.918	1.00
162_A	179_L	1.876	1.00
5_I	246_F	1.873	1.00
138_L	278_A	1.870	1.00
221_I	249_A	1.865	1.00
226_I	254_S	1.862	1.00
148_T	151_E	1.860	1.00
97_V	110_V	1.812	1.00
35_G	64_V	1.802	1.00
157_T	205_L	1.789	1.00
147_V	182_A	1.785	1.00
200_V	206_L	1.769	1.00
49_I	240_V	1.746	1.00
246_F	256_I	1.734	1.00
43_S	48_Q	1.733	1.00
235_L	239_K	1.718	1.00
158_F	192_F	1.699	1.00
20_A	24_Q	1.691	1.00
197_R	201_E	1.686	1.00
148_T	273_E	1.667	1.00
11_I	153_Y	1.646	1.00
19_V	276_L	1.639	1.00
61_V	272_I	1.622	1.00
199_H	202_N	1.613	1.00
204_D	222_K	1.591	1.00
132_C	177_M	1.524	1.00
244_V	249_A	1.522	1.00
139_R	178_E	1.521	1.00
227_V	244_V	1.512	1.00
217_P	245_V	1.508	1.00
180_L	188_V	1.504	1.00
160_L	194_K	1.480	1.00
40_L	48_Q	1.458	1.00
148_T	270_T	1.440	1.00
206_L	216_I	1.433	1.00
70_L	74_T	1.426	1.00
16_R	57_A	1.424	1.00
148_T	152_R	1.423	1.00
200_V	220_W	1.407	1.00
164_V	175_M	1.397	1.00
156_D	160_L	1.382	1.00
163_V	189_T	1.374	1.00
76_E	80_L	1.374	1.00
277_Q	281_E	1.366	1.00
66_R	92_I	1.358	1.00
18_E	152_R	1.356	1.00
19_V	61_V	1.353	1.00
198_H	202_N	1.350	1.00
76_E	106_D	1.348	1.00
217_P	248_D	1.347	1.00
49_I	53_S	1.323	1.00
247_E	250_A	1.310	1.00
144_R	273_E	1.310	1.00
218_G	249_A	1.310	1.00
70_L	82_L	1.309	1.00
167_A	191_R	1.307	1.00
144_R	277_Q	1.306	1.00
4_K	255_Y	1.300	1.00
64_V	92_I	1.282	1.00
6_I	153_Y	1.277	1.00
218_G	252_R	1.272	1.00
43_S	72_E	1.269	1.00
189_T	199_H	1.268	1.00
75_S	78_E	1.265	1.00
21_Q	24_Q	1.264	1.00
155_I	255_Y	1.264	1.00
11_I	152_R	1.259	1.00
222_K	225_A	1.253	1.00
214_G	241_V	1.249	1.00
25_A	29_A	1.246	1.00
23_V	63_F	1.235	1.00
163_V	203_A	1.234	1.00
189_T	193_T	1.231	1.00
15_V	19_V	1.223	1.00
37_A	68_Y	1.194	1.00
55_R	59_E	1.175	1.00
106_D	109_K	1.170	1.00
99_L	111_L	1.168	1.00
9_K	13_Q	1.167	1.00
189_T	196_L	1.162	1.00
55_R	67_S	1.162	1.00
73_T	78_E	1.156	1.00
163_V	199_H	1.136	1.00
221_I	225_A	1.133	1.00
52_A	56_K	1.123	1.00
40_L	69_D	1.123	1.00
76_E	105_I	1.122	1.00
66_R	89_D	1.122	1.00
128_V	132_C	1.120	1.00
201_E	252_R	1.117	1.00
214_G	247_E	1.117	1.00
64_V	91_T	1.110	1.00
63_F	276_L	1.105	1.00
17_S	21_Q	1.105	1.00
13_Q	17_S	1.104	1.00
197_R	220_W	1.094	1.00
210_V	233_N	1.092	1.00
37_A	92_I	1.090	1.00
17_S	20_A	1.084	1.00
37_A	86_L	1.083	1.00
212_K	215_F	1.062	1.00
145_G	266_M	1.027	0.99
197_R	219_D	1.025	0.99
249_A	256_I	1.024	0.99
160_L	205_L	1.021	0.99
48_Q	69_D	1.020	0.99
10_T	14_Q	1.020	0.99
235_L	241_V	1.017	0.99
213_P	235_L	1.013	0.99
6_I	255_Y	1.012	0.99
6_I	11_I	1.007	0.99
77_A	81_E	1.003	0.99
33_A	64_V	0.998	0.99
39_V	86_L	0.992	0.99
21_Q	25_A	0.991	0.99
43_S	69_D	0.990	0.99
162_A	184_C	0.990	0.99
112_E	125_P	0.963	0.99
185_T	193_T	0.963	0.99
58_C	272_I	0.962	0.99
15_V	269_A	0.961	0.99
58_C	63_F	0.955	0.99
144_R	148_T	0.950	0.99
80_L	109_K	0.944	0.99
57_A	272_I	0.943	0.99
87_N	115_H	0.942	0.99
48_Q	52_A	0.938	0.99
51_V	98_Q	0.936	0.99
146_I	230_V	0.936	0.99
57_A	61_V	0.935	0.99
136_P	277_Q	0.929	0.99
26_R	30_G	0.929	0.99
183_G	192_F	0.923	0.99
59_E	64_V	0.921	0.99
235_L	238_G	0.920	0.99
81_E	85_T	0.916	0.99
173_R	180_L	0.913	0.99
191_R	210_V	0.912	0.99
165_I	210_V	0.910	0.99
150_L	153_Y	0.905	0.99
248_D	251_K	0.903	0.99
80_L	84_D	0.903	0.99
19_V	269_A	0.902	0.99
78_E	81_E	0.901	0.99
68_Y	85_T	0.891	0.98
32_R	279_C	0.889	0.98
16_R	269_A	0.888	0.98
18_E	273_E	0.882	0.98
35_G	92_I	0.880	0.98
93_D	279_C	0.879	0.98
167_A	183_G	0.879	0.98
157_T	184_C	0.878	0.98
187_T	199_H	0.878	0.98
85_T	89_D	0.878	0.98
153_Y	255_Y	0.875	0.98
134_R	173_R	0.873	0.98
11_I	149_L	0.870	0.98
36_L	120_V	0.870	0.98
105_I	110_V	0.868	0.98
11_I	14_Q	0.864	0.98
265_P	268_V	0.862	0.98
130_R	135_A	0.857	0.98
9_K	261_G	0.857	0.98
22_K	276_L	0.852	0.98
139_R	144_R	0.848	0.98
15_V	270_T	0.848	0.98
226_I	255_Y	0.845	0.98
86_L	95_I	0.843	0.98
56_K	60_E	0.842	0.98
165_I	206_L	0.837	0.98
169_N	173_R	0.837	0.98
149_L	257_T	0.836	0.98
80_L	110_V	0.833	0.98
278_A	282_Y	0.831	0.98
147_V	157_T	0.827	0.98
126_Y	130_R	0.822	0.97
233_N	241_V	0.818	0.97
38_V	65_S	0.816	0.97
147_V	151_E	0.814	0.97
74_T	82_L	0.812	0.97
55_R	69_D	0.811	0.97
149_L	266_M	0.810	0.97
97_V	114_I	0.808	0.97
216_I	220_W	0.807	0.97
53_S	56_K	0.805	0.97
141_C	270_T	0.803	0.97
68_Y	86_L	0.801	0.97
208_V	233_N	0.795	0.97
197_R	200_V	0.794	0.97
14_Q	18_E	0.790	0.97
131_L	139_R	0.788	0.97
246_F	250_A	0.784	0.97
37_A	66_R	0.782	0.97
165_I	208_V	0.780	0.96
198_H	201_E	0.775	0.96
214_G	235_L	0.775	0.96
161_N	194_K	0.773	0.96
167_A	190_H	0.771	0.96
213_P	232_I	0.770	0.96
6_I	228_I	0.769	0.96
18_E	21_Q	0.766	0.96
249_A	252_R	0.756	0.96
161_N	187_T	0.755	0.96
207_I	230_V	0.752	0.96
144_R	270_T	0.751	0.96
224_G	253_A	0.747	0.96
213_P	241_V	0.742	0.95
26_R	31_L	0.740	0.95
147_V	162_A	0.738	0.95
208_V	244_V	0.738	0.95
13_Q	60_E	0.738	0.95
19_V	23_V	0.737	0.95
80_L	105_I	0.734	0.95
124_H	127_N	0.732	0.95
108_V	135_A	0.731	0.95
12_A	16_R	0.709	0.94
234_R	240_V	0.707	0.94
146_I	228_I	0.704	0.94
63_F	272_I	0.703	0.94
79_L	110_V	0.702	0.94
79_L	105_I	0.698	0.94
23_V	26_R	0.698	0.94
83_I	110_V	0.697	0.94
49_I	232_I	0.697	0.94
18_E	148_T	0.695	0.93
71_P	74_T	0.692	0.93
86_L	92_I	0.686	0.93
53_S	268_V	0.686	0.93
126_Y	137_R	0.684	0.93
24_Q	27_I	0.684	0.93
155_I	226_I	0.678	0.93
164_V	186_T	0.676	0.92
14_Q	17_S	0.675	0.92
27_I	30_G	0.674	0.92
38_V	55_R	0.673	0.92
41_V	79_L	0.672	0.92
229_D	242_G	0.671	0.92
22_K	273_E	0.670	0.92
49_I	52_A	0.669	0.92
112_E	130_R	0.669	0.92
95_I	114_I	0.667	0.92
225_A	254_S	0.666	0.92
273_E	277_Q	0.661	0.92
224_G	254_S	0.661	0.92
54_K	98_Q	0.660	0.92
26_R	276_L	0.660	0.92
162_A	175_M	0.657	0.91
212_K	217_P	0.656	0.91
158_F	194_K	0.655	0.91
270_T	273_E	0.650	0.91
108_V	112_E	0.650	0.91
26_R	32_R	0.650	0.91
227_V	249_A	0.649	0.91
216_I	221_I	0.644	0.91
208_V	216_I	0.644	0.91
164_V	179_L	0.643	0.91
19_V	22_K	0.641	0.90
26_R	279_C	0.641	0.90
18_E	22_K	0.640	0.90
149_L	265_P	0.638	0.90
183_G	190_H	0.637	0.90
150_L	155_I	0.637	0.90
53_S	232_I	0.637	0.90
116_P	124_H	0.636	0.90
175_M	207_I	0.635	0.90
99_L	107_N	0.634	0.90
58_C	65_S	0.633	0.90
155_I	205_L	0.629	0.90
39_V	82_L	0.627	0.89
225_A	253_A	0.625	0.89
125_P	133_Q	0.625	0.89
143_P	175_M	0.624	0.89
11_I	148_T	0.622	0.89
83_I	87_N	0.621	0.89
4_K	153_Y	0.619	0.89
180_L	183_G	0.619	0.89
206_L	227_V	0.618	0.89
49_I	234_R	0.616	0.89
109_K	113_R	0.615	0.89
167_A	192_F	0.614	0.88
185_T	189_T	0.610	0.88
99_L	123_F	0.609	0.88
78_E	82_L	0.609	0.88
163_V	200_V	0.609	0.88
90_N	282_Y	0.608	0.88
23_V	61_V	0.607	0.88
247_E	251_K	0.607	0.88
117_D	282_Y	0.606	0.88
51_V	54_K	0.605	0.88
177_M	180_L	0.605	0.88
10_T	13_Q	0.604	0.88
79_L	101_L	0.604	0.88
66_R	91_T	0.602	0.87
56_K	59_E	0.600	0.87
74_T	105_I	0.598	0.87
197_R	217_P	0.598	0.87
7_D	261_G	0.596	0.87
125_P	128_V	0.596	0.87
27_I	32_R	0.595	0.87
23_V	276_L	0.594	0.87
55_R	65_S	0.594	0.87
8_G	12_A	0.594	0.87
13_Q	16_R	0.592	0.87
38_V	67_S	0.591	0.86
26_R	33_A	0.591	0.86
229_D	260_P	0.591	0.86
150_L	157_T	0.590	0.86
23_V	31_L	0.589	0.86
16_R	61_V	0.587	0.86
179_L	207_I	0.587	0.86
46_A	234_R	0.586	0.86
165_I	200_V	0.585	0.86
120_V	278_A	0.585	0.86
81_E	84_D	0.585	0.86
191_R	215_F	0.579	0.85
244_V	256_I	0.579	0.85
168_S	259_V	0.574	0.85
15_V	273_E	0.571	0.85
128_V	133_Q	0.570	0.84
20_A	60_E	0.567	0.84
54_K	265_P	0.566	0.84
158_F	191_R	0.565	0.84
157_T	182_A	0.563	0.84
117_D	281_E	0.563	0.84
120_V	275_T	0.563	0.84
191_R	212_K	0.562	0.84
272_I	275_T	0.562	0.84
228_I	263_V	0.560	0.83
163_V	206_L	0.559	0.83
180_L	190_H	0.557	0.83
41_V	101_L	0.557	0.83
23_V	27_I	0.553	0.83
134_R	181_L	0.553	0.83
232_I	259_V	0.552	0.83
22_K	25_A	0.552	0.83
40_L	51_V	0.550	0.82
15_V	148_T	0.548	0.82
171_V	175_M	0.546	0.82
47_S	98_Q	0.546	0.82
59_E	63_F	0.545	0.82
232_I	240_V	0.545	0.82
221_I	253_A	0.545	0.82
213_P	233_N	0.544	0.82
27_I	31_L	0.543	0.82
250_A	256_I	0.543	0.82
123_F	128_V	0.539	0.81
45_P	49_I	0.538	0.81
6_I	152_R	0.536	0.81
232_I	235_L	0.534	0.80
166_G	231_G	0.533	0.80
130_R	133_Q	0.533	0.80
173_R	181_L	0.532	0.80
201_E	219_D	0.531	0.80
155_I	160_L	0.531	0.80
160_L	226_I	0.530	0.80
127_N	137_R	0.527	0.80
152_R	155_I	0.527	0.80
218_G	251_K	0.526	0.79
149_L	153_Y	0.526	0.79
200_V	216_I	0.526	0.79
17_S	60_E	0.525	0.79
116_P	126_Y	0.525	0.79
236_E	239_K	0.524	0.79
30_G	33_A	0.523	0.79
88_A	115_H	0.523	0.79
68_Y	74_T	0.523	0.79
39_V	83_I	0.521	0.79
133_Q	169_N	0.520	0.79
54_K	268_V	0.520	0.79
223_E	254_S	0.518	0.78
39_V	97_V	0.518	0.78
149_L	263_V	0.518	0.78
98_Q	268_V	0.515	0.78
45_P	234_R	0.515	0.78
214_G	217_P	0.512	0.78
131_L	136_P	0.509	0.77
176_S	180_L	0.509	0.77
150_L	226_I	0.509	0.77
35_G	91_T	0.509	0.77
131_L	137_R	0.507	0.77
15_V	152_R	0.506	0.77
38_V	54_K	0.506	0.77
37_A	67_S	0.506	0.77
101_L	105_I	0.504	0.77
200_V	221_I	0.502	0.76
53_S	57_A	0.501	0.76
177_M	181_L	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	0.9861	100	0.287	Contact Map
2c2xA	2	0.9653	100	0.289	Contact Map
4a5oA	2	0.9861	100	0.291	Contact Map
1b0aA	2	0.9965	100	0.292	Contact Map
3l07A	2	0.9826	100	0.293	Contact Map
4a26A	2	0.9861	100	0.305	Contact Map
3p2oA	2	0.9722	100	0.322	Contact Map
4b4uA	2	0.9792	100	0.322	Contact Map
1a4iA	2	0.9861	100	0.335	Contact Map
1edzA	2	0.941	100	0.422	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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