FOLM - ECOLI - GREMLIN Contacts

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FOLM - Dihydrofolate reductase FolM

UniProt:	P0AFS3	Sequences: MGKTQPLPILITGGGRRIGLALAWHFINQKQPVIVSYRTHYPAIDGLINAGAQCIQADFSTNDGVMAFADEVLKSTHGLRAILHNASAWMAEKPGAPLADVLACMMQIHVNTPYLLNHALERLLRGHGHAASDIIHFTDYVVERGSDKHIAYAASKAALDNMTRSFARKLAPEVKVNSIAPSLILFNEHDDAEYRQQALNKSLMKTAPGEKEVIDLVDYLLTSCFVTGRSFPLDGGRHLR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13189
Length:	240 (218)
Sequences:	131297 (91890)
Seq/√Len:	6223.6

ECOLI - FOLM HCAB KDUD IDNO UCPA YGCW ENTA YBBO FABI YGHA YOHF FABG HDHA SRLD BDCA YCIK YGFF YDFG
BACSU - UXUB YWFH GS39 YKVO DHBA YXBG YJDA YHXD YVRD YXJF YHXC FADH YHDF BACC DHG2 FABI YVAG DHG FABG KDUD FABL YTKK YOXD BZRD YMFI YXNA YQJQ YUSZ DLTE YUXG YUSR
HALSA - Q9HNC5 Q9HQ41 Q9HRV8 Q9HMA5 Q9HSR4 Q9HPP2 Q9HRZ2 Q9HS80 Q9HP93
SULSO - Q97VV6 Q97WD7 Q97ZE4 Q97UK6 Q97WF0 Q97UA4 Q97WL1 Q97Y09 Q97VG2 Q97ZA0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
103_A	111_N	3.270	1.00
103_A	107_Q	2.927	1.00
157_A	161_N	2.835	1.00
61_T	64_G	2.828	1.00
136_H	163_T	2.814	1.00
133_D	175_K	2.534	1.00
73_L	123_L	2.515	1.00
9_I	81_A	2.469	1.00
84_H	136_H	2.400	1.00
20_L	24_W	2.370	1.00
138_T	160_D	2.319	1.00
66_M	119_A	2.141	1.00
32_P	51_G	2.138	1.00
117_N	166_F	2.117	1.00
36_S	57_A	2.106	1.00
81_A	221_L	2.047	1.00
24_W	50_A	2.008	1.00
185_L	209_G	2.005	1.00
69_A	120_L	1.995	1.00
15_G	37_Y	1.936	1.00
107_Q	111_N	1.929	1.00
121_E	170_L	1.921	1.00
25_H	29_Q	1.905	1.00
62_N	99_A	1.876	1.00
8_P	32_P	1.860	1.00
18_I	184_I	1.849	1.00
14_G	35_V	1.801	1.00
25_H	215_D	1.800	1.00
34_I	76_T	1.764	1.00
53_Q	75_S	1.754	1.00
109_H	155_S	1.734	1.00
39_T	42_P	1.730	1.00
36_S	68_F	1.725	1.00
71_E	75_S	1.700	1.00
163_T	178_S	1.679	1.00
40_H	56_Q	1.679	1.00
22_L	217_V	1.649	1.00
25_H	218_D	1.610	1.00
83_L	137_F	1.606	1.00
6_P	31_Q	1.605	1.00
113_P	159_L	1.590	1.00
70_D	74_K	1.566	1.00
34_I	72_V	1.555	1.00
208_P	225_F	1.550	1.00
57_A	64_G	1.540	1.00
26_F	221_L	1.510	1.00
133_D	177_N	1.509	1.00
106_M	110_V	1.499	1.00
98_L	101_V	1.493	1.00
25_H	28_N	1.474	1.00
8_P	78_G	1.460	1.00
44_I	54_C	1.451	1.00
99_A	115_L	1.449	1.00
55_I	71_E	1.431	1.00
31_Q	81_A	1.427	1.00
82_I	116_L	1.410	1.00
23_A	35_V	1.408	1.00
16_R	187_N	1.388	1.00
45_D	49_N	1.379	1.00
29_Q	218_D	1.379	1.00
62_N	115_L	1.379	1.00
66_M	70_D	1.375	1.00
67_A	71_E	1.372	1.00
84_H	117_N	1.365	1.00
110_V	158_A	1.365	1.00
123_L	127_H	1.351	1.00
35_V	52_A	1.351	1.00
57_A	68_F	1.345	1.00
9_I	31_Q	1.340	1.00
71_E	74_K	1.336	1.00
55_I	68_F	1.327	1.00
138_T	178_S	1.311	1.00
32_P	53_Q	1.310	1.00
65_V	116_L	1.305	1.00
90_M	104_C	1.305	1.00
117_N	134_I	1.294	1.00
45_D	48_I	1.286	1.00
62_N	66_M	1.271	1.00
40_H	45_D	1.267	1.00
9_I	26_F	1.266	1.00
95_G	125_R	1.262	1.00
8_P	34_I	1.261	1.00
20_L	50_A	1.248	1.00
20_L	47_L	1.230	1.00
111_N	115_L	1.229	1.00
64_G	67_A	1.220	1.00
53_Q	76_T	1.218	1.00
21_A	24_W	1.200	1.00
20_L	46_G	1.196	1.00
163_T	176_V	1.194	1.00
78_G	127_H	1.189	1.00
184_I	208_P	1.157	1.00
192_A	196_Q	1.157	1.00
16_R	42_P	1.154	1.00
92_E	101_V	1.154	1.00
10_L	68_F	1.140	1.00
46_G	50_A	1.139	1.00
44_I	47_L	1.137	1.00
179_I	217_V	1.136	1.00
106_M	111_N	1.127	1.00
24_W	28_N	1.117	1.00
185_L	190_D	1.114	1.00
90_M	101_V	1.108	1.00
85_N	137_F	1.101	1.00
114_Y	162_M	1.097	1.00
34_I	53_Q	1.097	1.00
82_I	120_L	1.094	1.00
99_A	111_N	1.085	1.00
40_H	54_C	1.083	1.00
88_A	108_I	1.078	1.00
26_F	31_Q	1.067	1.00
21_A	211_K	1.064	1.00
7_L	80_R	1.057	1.00
79_L	120_L	1.053	1.00
196_Q	200_N	1.029	1.00
63_D	67_A	1.012	1.00
143_E	180_A	1.010	1.00
60_S	104_C	1.005	1.00
166_F	176_V	1.005	1.00
34_I	55_I	0.999	1.00
100_D	104_C	0.996	1.00
117_N	162_M	0.978	1.00
55_I	75_S	0.977	1.00
44_I	48_I	0.974	1.00
67_A	70_D	0.959	1.00
21_A	25_H	0.936	1.00
102_L	111_N	0.925	1.00
219_Y	223_S	0.925	1.00
25_H	214_I	0.923	1.00
8_P	76_T	0.919	1.00
142_V	160_D	0.917	1.00
113_P	136_H	0.912	1.00
22_L	83_L	0.912	1.00
152_Y	156_K	0.906	1.00
137_F	217_V	0.904	1.00
97_P	151_A	0.900	1.00
109_H	156_K	0.895	1.00
88_A	104_C	0.894	1.00
62_N	118_H	0.894	1.00
59_F	112_T	0.894	1.00
93_K	96_A	0.892	1.00
187_N	190_D	0.889	1.00
56_Q	64_G	0.885	1.00
60_S	107_Q	0.881	1.00
150_I	169_K	0.880	1.00
27_I	51_G	0.878	1.00
27_I	52_A	0.877	1.00
10_L	36_S	0.872	1.00
18_I	22_L	0.867	1.00
124_L	127_H	0.866	1.00
72_V	76_T	0.863	1.00
106_M	154_A	0.858	1.00
196_Q	199_L	0.855	1.00
153_A	161_N	0.855	1.00
160_D	180_A	0.847	1.00
16_R	20_L	0.846	1.00
99_A	118_H	0.846	1.00
183_L	189_H	0.843	1.00
117_N	136_H	0.843	1.00
25_H	211_K	0.837	1.00
57_A	65_V	0.836	1.00
63_D	66_M	0.836	1.00
148_K	169_K	0.828	1.00
160_D	178_S	0.826	1.00
46_G	49_N	0.820	1.00
101_V	104_C	0.815	1.00
73_L	126_G	0.815	1.00
16_R	39_T	0.812	1.00
123_L	126_G	0.812	1.00
89_W	188_E	0.811	1.00
69_A	119_A	0.807	1.00
139_D	152_Y	0.806	1.00
88_A	188_E	0.804	1.00
127_H	131_A	0.804	1.00
82_I	134_I	0.802	1.00
10_L	79_L	0.801	1.00
22_L	214_I	0.798	1.00
206_T	212_E	0.798	1.00
48_I	54_C	0.793	1.00
26_F	218_D	0.792	1.00
195_R	199_L	0.779	1.00
32_P	76_T	0.779	1.00
216_L	219_Y	0.767	1.00
84_H	116_L	0.759	1.00
53_Q	71_E	0.759	1.00
211_K	215_D	0.758	1.00
197_Q	200_N	0.757	1.00
113_P	117_N	0.756	1.00
125_R	170_L	0.756	1.00
177_N	220_L	0.753	1.00
99_A	103_A	0.750	1.00
102_L	151_A	0.746	1.00
133_D	224_C	0.745	1.00
95_G	170_L	0.743	1.00
145_G	161_N	0.741	1.00
37_Y	54_C	0.738	1.00
202_S	225_F	0.733	1.00
153_A	157_A	0.728	1.00
65_V	115_L	0.727	1.00
106_M	155_S	0.726	1.00
21_A	214_I	0.724	1.00
37_Y	56_Q	0.724	1.00
192_A	195_R	0.723	1.00
80_R	127_H	0.715	1.00
83_L	217_V	0.714	1.00
79_L	123_L	0.712	1.00
105_M	155_S	0.707	1.00
14_G	36_S	0.706	1.00
12_T	85_N	0.704	1.00
124_L	132_S	0.704	1.00
119_A	122_R	0.701	1.00
60_S	108_I	0.690	1.00
191_D	194_Y	0.690	1.00
62_N	119_A	0.688	1.00
209_G	212_E	0.688	1.00
214_I	218_D	0.686	1.00
138_T	180_A	0.685	1.00
21_A	210_E	0.682	1.00
135_I	221_L	0.677	1.00
29_Q	222_T	0.677	1.00
102_L	114_Y	0.674	1.00
17_R	186_F	0.672	1.00
41_Y	45_D	0.672	1.00
73_L	78_G	0.669	1.00
37_Y	40_H	0.663	1.00
65_V	119_A	0.662	1.00
94_P	150_I	0.662	1.00
141_V	153_A	0.661	1.00
165_S	169_K	0.657	1.00
143_E	160_D	0.656	1.00
47_L	50_A	0.656	1.00
24_W	27_I	0.653	1.00
110_V	154_A	0.652	1.00
88_A	155_S	0.651	1.00
136_H	176_V	0.643	1.00
157_A	160_D	0.641	1.00
131_A	175_K	0.639	1.00
185_L	195_R	0.636	1.00
12_T	84_H	0.636	1.00
35_V	54_C	0.635	1.00
69_A	116_L	0.635	1.00
70_D	73_L	0.635	1.00
12_T	116_L	0.630	1.00
70_D	123_L	0.629	1.00
134_I	176_V	0.629	1.00
193_E	196_Q	0.625	1.00
115_L	119_A	0.625	1.00
121_E	125_R	0.624	1.00
120_L	124_L	0.623	1.00
170_L	176_V	0.621	1.00
62_N	100_D	0.619	1.00
94_P	170_L	0.614	1.00
135_I	217_V	0.614	1.00
127_H	132_S	0.611	1.00
7_L	31_Q	0.611	1.00
26_F	81_A	0.607	1.00
113_P	116_L	0.606	1.00
219_Y	222_T	0.605	1.00
11_I	23_A	0.599	1.00
150_I	165_S	0.599	1.00
16_R	37_Y	0.595	1.00
94_P	166_F	0.592	1.00
212_E	225_F	0.591	1.00
111_N	114_Y	0.589	1.00
104_C	107_Q	0.586	1.00
72_V	77_H	0.586	1.00
37_Y	44_I	0.585	1.00
78_G	123_L	0.584	1.00
103_A	115_L	0.584	1.00
157_A	164_R	0.583	1.00
142_V	157_A	0.582	1.00
160_D	164_R	0.579	1.00
72_V	75_S	0.577	1.00
167_A	177_N	0.572	1.00
38_R	58_D	0.568	1.00
48_I	52_A	0.568	1.00
215_D	224_C	0.566	1.00
9_I	221_L	0.566	1.00
150_I	162_M	0.566	1.00
164_R	167_A	0.566	1.00
73_L	77_H	0.564	1.00
212_E	224_C	0.564	1.00
62_N	103_A	0.563	1.00
110_V	159_L	0.562	1.00
114_Y	118_H	0.562	1.00
184_I	213_V	0.562	1.00
55_I	72_V	0.561	1.00
37_Y	42_P	0.561	1.00
14_G	23_A	0.559	1.00
69_A	73_L	0.558	1.00
59_F	86_A	0.555	1.00
87_S	109_H	0.551	1.00
114_Y	158_A	0.551	1.00
7_L	131_A	0.545	1.00
24_W	211_K	0.544	1.00
15_G	38_R	0.544	1.00
12_T	86_A	0.544	1.00
161_N	164_R	0.541	1.00
108_I	112_T	0.540	1.00
170_L	174_V	0.540	1.00
26_F	217_V	0.538	1.00
68_F	116_L	0.537	1.00
70_D	119_A	0.533	1.00
127_H	130_A	0.529	1.00
10_L	116_L	0.527	1.00
154_A	162_M	0.521	1.00
161_N	165_S	0.520	1.00
94_P	162_M	0.519	1.00
206_T	224_C	0.518	1.00
8_P	72_V	0.518	1.00
6_P	32_P	0.518	1.00
51_G	75_S	0.516	1.00
42_P	46_G	0.515	1.00
124_L	131_A	0.512	1.00
90_M	105_M	0.512	1.00
36_S	55_I	0.510	1.00
38_R	56_Q	0.510	1.00
171_A	204_M	0.509	1.00
84_H	113_P	0.508	1.00
212_E	215_D	0.507	1.00
36_S	59_F	0.506	1.00
23_A	27_I	0.503	1.00
105_M	151_A	0.503	1.00
10_L	72_V	0.502	1.00
145_G	157_A	0.502	1.00
27_I	33_V	0.500	1.00
92_E	96_A	0.500	1.00

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
3gemA	4	0.9625	100	0.125	Contact Map
3wtcA	4	0.9875	100	0.136	Contact Map
2o23A	3	0.9708	100	0.141	Contact Map
1vl8A	4	0.9875	100	0.142	Contact Map
4weoA	4	0.9542	100	0.142	Contact Map
3pk0A	4	0.9875	100	0.142	Contact Map
4rgbA	2	0.9875	100	0.143	Contact Map
3rihA	4	0.9875	100	0.143	Contact Map
3lf2A	4	0.9792	100	0.144	Contact Map
1iy8A	4	0.9792	100	0.146	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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