RMLA1 - ECOLI - GREMLIN Contacts

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RMLA1 - Glucose-1-phosphate thymidylyltransferase 1

UniProt:	P37744	Sequences: MKMRKGIILAGGSGTRLYPVTMAVSKQLLPIYDKPMIYYPLSTLMLAGIRDILIISTPQDTPRFQQLLGDGSQWGLNLQYKVQPSPDGLAQAFIIGEEFIGGDDCALVLGDNIFYGHDLPKLMEAAVNKESGATVFAYHVNDPERYGVVEFDKNGTAISLEEKPLEPKSNYAVTGLYFYDNDVVQMAKNLKPSARGELEITDINRIYLEQGRLSVAMMGRGYAWLDTGTHQSLIEASNFIATIEERQGLKVSCPEEIAFRKGFIDVEQVRKLAVPLIKNNYGQYLYKMTKDSN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11978
Length:	293 (241)
Sequences:	22570 (13881)
Seq/√Len:	894.1

ECOLI - RMLA1 RMLA2 GALF GALU GLGC GLMU
BACSU - RMLA GLMU YNGB GTAB GLGC YTDA RFBF GLGD
HALSA - Q9HQQ4 Q9HSV0 Q9HSZ9 Q9HSZ8 Q9HS61 Q9HSW4
SULSO - Q7LXE7 Q97ZD1 Q980H9 Q97XG0 Q97U06 Q97VX4 Q7LXK9 Q980D4 Q7LXG3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
97_E	188_K	3.787	1.00
34_K	42_S	3.164	1.00
150_E	158_I	2.961	1.00
38_Y	67_L	2.906	1.00
150_E	159_S	2.838	1.00
51_D	77_N	2.624	1.00
152_D	156_T	2.594	1.00
5_K	51_D	2.588	1.00
87_D	91_Q	2.585	1.00
139_H	170_N	2.560	1.00
61_T	65_Q	2.552	1.00
186_M	210_Q	2.466	1.00
126_A	134_T	2.416	1.00
6_G	49_I	2.376	1.00
51_D	79_Q	2.320	1.00
104_D	180_D	2.308	1.00
186_M	206_I	2.237	1.00
6_G	44_L	2.220	1.00
152_D	158_I	2.161	1.00
56_S	61_T	2.113	1.00
41_L	52_I	2.106	1.00
139_H	218_M	2.066	1.00
94_I	97_E	2.022	1.00
61_T	82_V	1.975	1.00
205_R	209_E	1.938	1.00
150_E	169_S	1.890	1.00
206_I	210_Q	1.886	1.00
159_S	205_R	1.865	1.00
81_K	95_I	1.859	1.00
62_P	66_Q	1.846	1.00
10_A	54_I	1.840	1.00
93_F	107_L	1.809	1.00
7_I	96_G	1.783	1.00
225_L	235_E	1.760	1.00
206_I	209_E	1.756	1.00
44_L	108_V	1.739	1.00
38_Y	42_S	1.704	1.00
163_K	167_P	1.688	1.00
120_P	124_E	1.668	1.00
151_F	171_Y	1.665	1.00
24_V	30_P	1.653	1.00
18_Y	22_M	1.653	1.00
142_D	145_R	1.645	1.00
132_G	180_D	1.632	1.00
24_V	63_R	1.615	1.00
104_D	127_V	1.603	1.00
65_Q	82_V	1.582	1.00
53_L	99_F	1.579	1.00
132_G	212_R	1.570	1.00
124_E	128_N	1.520	1.00
35_P	38_Y	1.507	1.00
137_A	149_V	1.501	1.00
79_Q	99_F	1.493	1.00
28_L	63_R	1.468	1.00
63_R	66_Q	1.465	1.00
131_S	214_S	1.423	1.00
91_Q	95_I	1.420	1.00
121_K	124_E	1.418	1.00
125_A	129_K	1.418	1.00
182_D	185_Q	1.413	1.00
53_L	81_K	1.406	1.00
233_L	237_S	1.399	1.00
202_D	205_R	1.391	1.00
100_I	105_C	1.347	1.00
149_V	157_A	1.345	1.00
133_A	179_Y	1.302	1.00
104_D	181_N	1.297	1.00
69_G	80_Y	1.294	1.00
105_C	181_N	1.290	1.00
94_I	188_K	1.290	1.00
122_L	136_F	1.286	1.00
229_T	232_S	1.284	1.00
189_N	206_I	1.267	1.00
52_I	76_L	1.267	1.00
91_Q	94_I	1.263	1.00
150_E	161_E	1.262	1.00
161_E	168_K	1.258	1.00
189_N	210_Q	1.253	1.00
152_D	155_G	1.236	1.00
179_Y	204_N	1.234	1.00
186_M	203_I	1.228	1.00
122_L	178_F	1.206	1.00
60_D	63_R	1.194	1.00
186_M	189_N	1.193	1.00
185_Q	188_K	1.173	1.00
106_A	178_F	1.166	1.00
53_L	96_G	1.166	1.00
185_Q	189_N	1.163	1.00
125_A	217_M	1.160	1.00
121_K	125_A	1.156	1.00
131_S	212_R	1.150	1.00
240_I	244_E	1.147	1.00
88_G	201_T	1.144	1.00
71_G	74_W	1.142	1.00
227_T	236_A	1.141	1.00
115_Y	243_I	1.140	1.00
125_A	128_N	1.127	1.00
13_S	86_P	1.125	1.00
109_L	175_G	1.113	1.00
38_Y	71_G	1.112	1.00
182_D	212_R	1.110	1.00
56_S	65_Q	1.106	1.00
171_Y	218_M	1.105	1.00
137_A	171_Y	1.105	1.00
65_Q	80_Y	1.104	1.00
34_K	39_Y	1.096	1.00
118_D	121_K	1.094	1.00
156_T	213_L	1.093	1.00
104_D	178_F	1.090	1.00
49_I	106_A	1.090	1.00
103_D	181_N	1.085	1.00
17_L	29_L	1.077	1.00
56_S	64_F	1.070	1.00
137_A	215_V	1.064	1.00
28_L	67_L	1.062	1.00
234_I	238_N	1.062	1.00
36_M	227_T	1.060	1.00
186_M	212_R	1.050	1.00
37_I	68_L	1.050	1.00
232_S	235_E	1.048	1.00
7_I	105_C	1.045	1.00
225_L	239_F	1.045	1.00
222_Y	239_F	1.041	1.00
129_K	214_S	1.040	1.00
107_L	179_Y	1.039	1.00
56_S	82_V	1.029	1.00
124_E	127_V	1.027	1.00
147_G	162_E	1.001	1.00
11_G	55_I	1.000	1.00
237_S	241_A	0.994	1.00
35_P	67_L	0.984	1.00
56_S	80_Y	0.982	1.00
156_T	214_S	0.981	1.00
37_I	54_I	0.979	1.00
45_M	76_L	0.977	1.00
241_A	245_E	0.971	1.00
231_Q	235_E	0.969	1.00
53_L	79_Q	0.967	1.00
42_S	45_M	0.956	1.00
144_E	163_K	0.952	1.00
212_R	215_V	0.934	1.00
115_Y	118_D	0.934	1.00
5_K	103_D	0.933	1.00
126_A	178_F	0.927	1.00
37_I	64_F	0.926	1.00
207_Y	212_R	0.925	1.00
47_A	120_P	0.918	1.00
239_F	245_E	0.914	1.00
106_A	123_M	0.911	1.00
62_P	65_Q	0.910	1.00
5_K	53_L	0.909	1.00
225_L	236_A	0.903	1.00
148_V	172_A	0.902	1.00
30_P	35_P	0.901	1.00
157_A	216_A	0.898	1.00
5_K	100_I	0.896	1.00
94_I	187_A	0.894	1.00
239_F	243_I	0.893	1.00
57_T	60_D	0.885	1.00
157_A	215_V	0.880	1.00
130_E	180_D	0.878	1.00
173_V	177_Y	0.875	1.00
5_K	101_G	0.873	1.00
27_Q	110_G	0.873	1.00
41_L	68_L	0.871	1.00
112_N	224_W	0.871	1.00
213_L	216_A	0.861	1.00
65_Q	69_G	0.860	1.00
145_R	232_S	0.859	1.00
34_K	38_Y	0.859	1.00
238_N	241_A	0.857	1.00
17_L	21_T	0.856	1.00
234_I	237_S	0.853	1.00
144_E	165_L	0.848	1.00
137_A	216_A	0.848	1.00
4_R	127_V	0.846	1.00
81_K	99_F	0.843	1.00
41_L	78_L	0.840	1.00
167_P	170_N	0.838	1.00
97_E	184_V	0.836	1.00
123_M	127_V	0.836	1.00
32_Y	237_S	0.833	1.00
54_I	78_L	0.833	1.00
108_V	119_L	0.831	1.00
21_T	29_L	0.827	1.00
36_M	40_P	0.825	1.00
9_L	109_L	0.822	1.00
8_I	110_G	0.822	1.00
203_I	206_I	0.818	1.00
33_D	39_Y	0.817	1.00
201_T	205_R	0.813	1.00
133_A	137_A	0.810	1.00
50_R	77_N	0.810	1.00
126_A	180_D	0.810	1.00
145_R	163_K	0.806	1.00
4_R	103_D	0.802	1.00
134_T	137_A	0.800	1.00
125_A	216_A	0.799	1.00
235_E	238_N	0.798	1.00
159_S	166_E	0.796	1.00
239_F	242_T	0.785	1.00
25_S	63_R	0.785	1.00
134_T	138_Y	0.771	1.00
133_A	207_Y	0.771	1.00
89_L	109_L	0.766	1.00
117_H	120_P	0.765	1.00
129_K	132_G	0.763	1.00
235_E	239_F	0.763	1.00
244_E	247_Q	0.758	1.00
158_I	161_E	0.758	1.00
43_T	47_A	0.748	1.00
123_M	178_F	0.737	1.00
20_V	230_H	0.737	1.00
45_M	50_R	0.736	1.00
45_M	52_I	0.733	1.00
101_G	181_N	0.731	1.00
7_I	55_I	0.728	1.00
160_L	173_V	0.727	1.00
145_R	229_T	0.727	1.00
32_Y	39_Y	0.725	1.00
182_D	210_Q	0.723	1.00
29_L	233_L	0.719	1.00
191_K	194_A	0.718	1.00
240_I	245_E	0.718	1.00
239_F	244_E	0.717	1.00
54_I	68_L	0.717	1.00
182_D	186_M	0.716	1.00
39_Y	42_S	0.710	1.00
131_S	156_T	0.706	1.00
93_F	183_V	0.705	1.00
46_L	120_P	0.699	1.00
49_I	123_M	0.699	1.00
6_G	52_I	0.698	1.00
121_K	217_M	0.697	1.00
150_E	168_K	0.695	1.00
129_K	134_T	0.694	1.00
241_A	244_E	0.693	1.00
66_Q	69_G	0.692	1.00
20_V	23_A	0.691	1.00
81_K	96_G	0.690	1.00
72_S	76_L	0.690	1.00
68_L	78_L	0.688	1.00
20_V	24_V	0.687	1.00
39_Y	240_I	0.685	1.00
9_L	89_L	0.685	1.00
42_S	74_W	0.681	1.00
35_P	39_Y	0.677	1.00
132_G	182_D	0.676	1.00
132_G	136_F	0.674	1.00
16_R	26_K	0.672	1.00
30_P	33_D	0.671	1.00
190_L	194_A	0.668	1.00
86_P	91_Q	0.664	1.00
100_I	184_V	0.663	1.00
190_L	198_L	0.662	1.00
97_E	105_C	0.662	1.00
161_E	164_P	0.659	1.00
219_G	222_Y	0.659	1.00
185_Q	210_Q	0.658	1.00
99_F	102_G	0.654	1.00
41_L	54_I	0.654	1.00
14_G	26_K	0.651	1.00
5_K	105_C	0.648	1.00
242_T	246_R	0.646	1.00
84_P	87_D	0.645	1.00
85_S	91_Q	0.642	1.00
193_S	196_G	0.640	1.00
133_A	204_N	0.636	1.00
131_S	215_V	0.634	1.00
55_I	92_A	0.634	1.00
190_L	196_G	0.630	1.00
182_D	211_G	0.628	1.00
94_I	198_L	0.627	1.00
122_L	134_T	0.623	1.00
137_A	140_V	0.622	1.00
135_V	149_V	0.621	1.00
238_N	242_T	0.618	1.00
139_H	171_Y	0.613	1.00
38_Y	68_L	0.612	1.00
181_N	184_V	0.612	1.00
192_P	198_L	0.612	1.00
8_I	108_V	0.607	1.00
8_I	40_P	0.606	1.00
55_I	96_G	0.606	1.00
204_N	213_L	0.605	1.00
43_T	176_L	0.601	1.00
55_I	81_K	0.599	1.00
88_G	202_D	0.599	1.00
7_I	53_L	0.597	1.00
119_L	122_L	0.597	1.00
183_V	207_Y	0.594	1.00
190_L	206_I	0.592	1.00
192_P	195_R	0.591	1.00
79_Q	83_Q	0.590	1.00
109_L	112_N	0.590	1.00
156_T	215_V	0.584	1.00
234_I	241_A	0.583	1.00
78_L	83_Q	0.583	1.00
155_G	218_M	0.583	1.00
28_L	64_F	0.579	1.00
39_Y	43_T	0.577	1.00
44_L	106_A	0.573	1.00
195_R	199_E	0.572	1.00
98_E	101_G	0.572	1.00
186_M	207_Y	0.566	1.00
157_A	160_L	0.565	1.00
231_Q	245_E	0.565	1.00
57_T	86_P	0.563	1.00
138_Y	172_A	0.561	1.00
83_Q	92_A	0.560	1.00
7_I	93_F	0.560	1.00
235_E	245_E	0.559	1.00
79_Q	82_V	0.558	1.00
151_F	216_A	0.557	1.00
56_S	62_P	0.555	1.00
137_A	157_A	0.554	1.00
234_I	239_F	0.553	1.00
195_R	198_L	0.553	1.00
174_T	224_W	0.553	1.00
159_S	209_E	0.553	1.00
54_I	80_Y	0.550	1.00
166_E	169_S	0.548	1.00
196_G	199_E	0.548	1.00
44_L	49_I	0.548	1.00
89_L	173_V	0.547	1.00
151_F	154_N	0.547	1.00
108_V	176_L	0.547	1.00
113_I	236_A	0.547	1.00
6_G	108_V	0.544	1.00
45_M	77_N	0.541	1.00
171_Y	217_M	0.541	1.00
43_T	46_L	0.541	1.00
190_L	203_I	0.539	1.00
40_P	108_V	0.538	1.00
230_H	234_I	0.537	1.00
20_V	29_L	0.537	1.00
93_F	184_V	0.533	1.00
40_P	43_T	0.533	1.00
83_Q	86_P	0.528	1.00
25_S	60_D	0.528	1.00
155_G	158_I	0.526	1.00
41_L	76_L	0.525	1.00
9_L	92_A	0.522	1.00
202_D	206_I	0.522	1.00
237_S	245_E	0.519	1.00
126_A	133_A	0.518	1.00
119_L	126_A	0.518	1.00
26_K	111_D	0.518	1.00
72_S	75_G	0.517	1.00
192_P	196_G	0.516	1.00
96_G	99_F	0.516	1.00
42_S	46_L	0.515	1.00
218_M	221_G	0.514	1.00
45_M	75_G	0.512	1.00
190_L	195_R	0.507	1.00
138_Y	174_T	0.506	1.00
91_Q	198_L	0.506	1.00
56_S	60_D	0.505	1.00
197_E	200_I	0.504	1.00
231_Q	246_R	0.504	1.00
243_I	247_Q	0.500	1.00
242_T	245_E	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
1iimA	3	0.9863	100	0.306	Contact Map
1lvwA	3	0.9932	100	0.321	Contact Map
4ho4A	3	0.9898	100	0.324	Contact Map
1mc3A	3	0.9932	100	0.325	Contact Map
2e3dA	3	0.8703	100	0.364	Contact Map
3jukA	3	0.8157	100	0.374	Contact Map
3brkX	2	0.9488	100	0.374	Contact Map
1yp2A	4	0.9693	100	0.376	Contact Map
2ux8A	4	0.8737	100	0.379	Contact Map
2pa4A	3	0.8908	100	0.393	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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