PRMC - BACSU - GREMLIN Contacts

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PRMC - Release factor glutamine methyltransferase

UniProt:	P45873	Sequences: MKTIFEALKWASSYLTEAGREENAAELLLLYDTGMERSKLLASLQEPIGEDELYRFKRHVEMHKEGVPVQYIIGKEFFYGREFMVNDDVLIPRPETEEVVFHLLEKYRSVFSEDGKLEVVDVGTGSGAIAVTLALENQSFSVSAVDISKEALQVASANAEKLGANVRFYQGDLLEPFIKAGKKADIIVSNPPYISEEEMADLSEIVRFHEPLHALTDGGDGLKFYKRFMEDIPLVMKDKVFVVFEIGWKQGAAVKDLILKAFKGAEVEVLKDINGKDRTICALIHKNK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	288 (268)
Sequences:	5732 (4405)
Seq/√Len:	269.1

ECOLI - PRMC PRMB
BACSU - PRMC
HALSA - Q9HQH3
SULSO - Q7LXK7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
62_M	67_V	4.796	1.00
84_M	157_A	3.937	1.00
75_K	82_E	3.692	1.00
130_A	144_A	2.956	1.00
171_G	176_P	2.594	1.00
271_K	277_D	2.593	1.00
88_D	150_E	2.582	1.00
149_K	170_Q	2.499	1.00
147_I	213_H	2.475	1.00
185_D	237_K	2.326	1.00
49_G	52_E	2.274	1.00
159_A	168_F	2.146	1.00
120_V	184_A	2.138	1.00
26_E	37_R	2.134	1.00
130_A	142_V	2.105	1.00
77_F	82_E	2.093	1.00
81_R	135_L	2.090	1.00
79_Y	136_E	2.065	1.00
36_E	39_K	2.058	1.00
143_S	184_A	2.045	1.00
220_D	226_K	2.037	1.00
229_M	258_I	2.031	1.00
83_F	132_T	2.020	1.00
218_G	223_K	2.016	1.00
143_S	169_Y	2.002	1.00
59_H	72_I	1.972	1.00
244_F	258_I	1.971	1.00
133_L	188_V	1.958	1.00
11_A	60_V	1.884	1.00
196_E	216_T	1.871	1.00
86_N	154_V	1.871	1.00
124_T	155_A	1.860	1.00
71_Y	210_E	1.837	1.00
131_V	164_A	1.819	1.00
232_I	242_V	1.798	1.00
236_M	240_V	1.780	1.00
84_M	161_K	1.778	1.00
32_D	59_H	1.778	1.00
118_E	141_S	1.766	1.00
7_A	48_I	1.765	1.00
102_H	270_L	1.758	1.00
29_L	56_F	1.747	1.00
66_G	204_E	1.732	1.00
103_L	243_V	1.730	1.00
134_A	165_N	1.730	1.00
251_G	269_V	1.710	1.00
81_R	132_T	1.691	1.00
74_G	84_M	1.690	1.00
43_S	46_E	1.683	1.00
81_R	136_E	1.664	1.00
95_E	98_E	1.664	1.00
258_I	282_A	1.650	1.00
89_V	126_S	1.645	1.00
104_L	137_N	1.561	1.00
199_M	216_T	1.543	1.00
251_G	277_D	1.526	1.00
70_Q	76_E	1.511	1.00
173_L	224_F	1.510	1.00
134_A	142_V	1.507	1.00
35_M	39_K	1.484	1.00
31_Y	73_I	1.484	1.00
106_K	241_F	1.471	1.00
96_T	129_I	1.446	1.00
11_A	56_F	1.442	1.00
174_L	235_V	1.441	1.00
212_L	216_T	1.436	1.00
103_L	186_I	1.436	1.00
39_K	43_S	1.412	1.00
172_D	227_R	1.398	1.00
79_Y	101_F	1.391	1.00
225_Y	244_F	1.388	1.00
77_F	80_G	1.387	1.00
67_V	87_D	1.384	1.00
152_L	168_F	1.382	1.00
195_S	249_K	1.357	1.00
248_W	276_K	1.350	1.00
106_K	243_V	1.350	1.00
172_D	175_E	1.338	1.00
102_H	105_E	1.336	1.00
99_V	243_V	1.331	1.00
144_A	166_V	1.320	1.00
255_K	269_V	1.307	1.00
227_R	231_D	1.306	1.00
103_L	188_V	1.298	1.00
255_K	259_L	1.262	1.00
83_F	128_A	1.260	1.00
131_V	159_A	1.258	1.00
137_N	140_F	1.253	1.00
31_Y	59_H	1.239	1.00
246_I	280_I	1.238	1.00
14_Y	64_K	1.237	1.00
124_T	130_A	1.219	1.00
256_D	260_K	1.205	1.00
31_Y	75_K	1.204	1.00
243_V	281_C	1.194	1.00
67_V	72_I	1.192	1.00
79_Y	132_T	1.188	1.00
229_M	257_L	1.180	1.00
195_S	198_E	1.179	1.00
148_S	213_H	1.175	1.00
270_L	281_C	1.174	1.00
118_E	182_K	1.165	1.00
83_F	131_V	1.158	1.00
122_V	228_F	1.158	1.00
152_L	170_Q	1.155	1.00
82_E	161_K	1.153	1.00
98_E	273_I	1.152	1.00
231_D	234_L	1.146	1.00
119_V	140_F	1.146	1.00
88_D	154_V	1.144	1.00
217_D	225_Y	1.139	1.00
219_G	226_K	1.138	1.00
148_S	151_A	1.136	1.00
145_V	177_F	1.135	1.00
70_Q	91_I	1.134	1.00
183_K	237_K	1.133	1.00
222_L	253_A	1.133	1.00
85_V	154_V	1.128	1.00
53_L	57_K	1.125	1.00
10_W	57_K	1.117	1.00
98_E	279_T	1.115	1.00
247_G	250_Q	1.114	1.00
48_I	52_E	1.105	1.00
222_L	257_L	1.103	1.00
189_S	244_F	1.095	1.00
141_S	167_R	1.090	1.00
114_D	117_L	1.086	1.00
198_E	249_K	1.076	1.00
100_V	132_T	1.074	1.00
144_A	168_F	1.069	1.00
246_I	251_G	1.064	1.00
85_V	89_V	1.062	1.00
38_S	42_A	1.053	1.00
155_A	168_F	1.044	1.00
269_V	280_I	1.041	1.00
230_E	261_A	1.040	1.00
108_R	137_N	1.040	1.00
107_Y	186_I	1.034	1.00
145_V	171_G	1.034	1.00
100_V	129_I	1.013	1.00
135_L	164_A	1.011	1.00
14_Y	57_K	1.011	1.00
104_L	136_E	1.010	1.00
66_G	205_I	1.007	1.00
7_A	56_F	0.995	1.00
131_V	162_L	0.995	1.00
118_E	143_S	0.993	1.00
121_D	130_A	0.986	1.00
173_L	227_R	0.981	1.00
20_R	23_N	0.980	1.00
119_V	133_L	0.978	1.00
19_G	23_N	0.976	1.00
24_A	63_H	0.966	1.00
62_M	65_E	0.962	1.00
119_V	142_V	0.959	1.00
199_M	212_L	0.956	1.00
122_V	173_L	0.955	1.00
143_S	167_R	0.954	1.00
130_A	134_A	0.954	1.00
28_L	56_F	0.952	1.00
232_I	264_G	0.943	1.00
130_A	166_V	0.943	1.00
32_D	52_E	0.935	1.00
102_H	281_C	0.930	1.00
157_A	161_K	0.926	1.00
159_A	164_A	0.923	1.00
174_L	231_D	0.923	1.00
146_D	152_L	0.919	1.00
10_W	14_Y	0.915	1.00
15_L	20_R	0.911	1.00
15_L	60_V	0.910	1.00
101_F	105_E	0.907	1.00
217_D	224_F	0.901	1.00
258_I	280_I	0.897	1.00
184_A	187_I	0.895	1.00
35_M	43_S	0.894	1.00
118_E	184_A	0.891	1.00
27_L	69_V	0.891	1.00
135_L	162_L	0.889	1.00
167_R	182_K	0.886	1.00
251_G	255_K	0.884	1.00
55_R	58_R	0.875	1.00
252_A	256_D	0.871	1.00
269_V	277_D	0.870	1.00
57_K	61_E	0.869	1.00
63_H	205_I	0.869	1.00
117_L	140_F	0.862	1.00
134_A	166_V	0.861	1.00
217_D	223_K	0.857	1.00
14_Y	18_A	0.856	1.00
50_E	53_L	0.856	1.00
61_E	64_K	0.852	1.00
118_E	237_K	0.845	1.00
196_E	218_G	0.845	1.00
124_T	146_D	0.844	1.00
270_L	279_T	0.843	1.00
271_K	275_G	0.841	1.00
30_L	33_T	0.836	0.99
102_H	279_T	0.834	0.99
256_D	259_L	0.828	0.99
199_M	202_L	0.827	0.99
268_E	281_C	0.825	0.99
24_A	69_V	0.824	0.99
132_T	136_E	0.823	0.99
80_G	136_E	0.820	0.99
86_N	157_A	0.814	0.99
157_A	160_E	0.813	0.99
229_M	282_A	0.810	0.99
246_I	254_V	0.805	0.99
20_R	66_G	0.804	0.99
46_E	52_E	0.799	0.99
28_L	59_H	0.798	0.99
196_E	199_M	0.796	0.99
75_K	161_K	0.796	0.99
106_K	268_E	0.785	0.99
123_G	173_L	0.783	0.99
267_V	282_A	0.783	0.99
156_S	160_E	0.782	0.99
194_I	215_L	0.780	0.99
220_D	223_K	0.779	0.99
71_Y	91_I	0.778	0.99
80_G	135_L	0.773	0.99
89_V	154_V	0.773	0.99
8_L	29_L	0.769	0.99
156_S	159_A	0.766	0.99
122_V	174_L	0.761	0.99
150_E	153_Q	0.761	0.99
222_L	226_K	0.759	0.99
81_R	162_L	0.758	0.99
50_E	54_Y	0.743	0.99
121_D	124_T	0.742	0.99
100_V	104_L	0.740	0.99
264_G	282_A	0.736	0.99
95_E	279_T	0.733	0.99
251_G	276_K	0.732	0.99
246_I	269_V	0.731	0.99
71_Y	88_D	0.729	0.99
100_V	133_L	0.728	0.99
107_Y	137_N	0.728	0.99
255_K	277_D	0.721	0.98
116_K	141_S	0.718	0.98
86_N	150_E	0.718	0.98
55_R	59_H	0.717	0.98
7_A	53_L	0.711	0.98
119_V	137_N	0.708	0.98
224_F	227_R	0.707	0.98
252_A	277_D	0.701	0.98
255_K	267_V	0.700	0.98
95_E	274_N	0.697	0.98
9_K	13_S	0.696	0.98
102_H	106_K	0.696	0.98
233_P	264_G	0.694	0.98
123_G	224_F	0.692	0.98
228_F	242_V	0.689	0.98
143_S	182_K	0.689	0.98
8_L	26_E	0.688	0.98
119_V	186_I	0.684	0.98
229_M	244_F	0.683	0.98
103_L	107_Y	0.683	0.98
91_I	214_A	0.680	0.98
195_S	217_D	0.679	0.98
91_I	210_E	0.678	0.98
102_H	243_V	0.677	0.98
67_V	209_H	0.675	0.98
171_G	177_F	0.674	0.98
225_Y	254_V	0.673	0.98
198_E	248_W	0.671	0.98
129_I	188_V	0.671	0.98
131_V	135_L	0.671	0.98
148_S	152_L	0.670	0.98
58_R	61_E	0.669	0.98
227_R	230_E	0.668	0.98
169_Y	182_K	0.667	0.98
159_A	162_L	0.667	0.98
19_G	22_E	0.663	0.97
153_Q	156_S	0.662	0.97
124_T	144_A	0.660	0.97
142_V	166_V	0.659	0.97
134_A	159_A	0.657	0.97
259_L	267_V	0.655	0.97
14_Y	17_E	0.651	0.97
249_K	276_K	0.651	0.97
120_V	174_L	0.650	0.97
56_F	60_V	0.650	0.97
225_Y	246_I	0.649	0.97
223_K	226_K	0.646	0.97
14_Y	61_E	0.646	0.97
195_S	199_M	0.642	0.97
196_E	219_G	0.642	0.97
254_V	257_L	0.640	0.97
97_E	100_V	0.639	0.97
25_A	56_F	0.637	0.97
120_V	177_F	0.637	0.97
13_S	17_E	0.636	0.97
199_M	217_D	0.636	0.97
123_G	189_S	0.633	0.97
26_E	41_L	0.632	0.97
226_K	257_L	0.630	0.96
199_M	207_R	0.629	0.96
30_L	35_M	0.629	0.96
159_A	166_V	0.628	0.96
7_A	11_A	0.625	0.96
32_D	55_R	0.624	0.96
229_M	261_A	0.622	0.96
242_V	258_I	0.622	0.96
75_K	84_M	0.620	0.96
8_L	12_S	0.620	0.96
186_I	241_F	0.619	0.96
149_K	153_Q	0.619	0.96
174_L	177_F	0.613	0.96
132_T	135_L	0.611	0.96
229_M	254_V	0.611	0.96
145_V	169_Y	0.611	0.96
124_T	168_F	0.610	0.96
106_K	281_C	0.607	0.96
196_E	217_D	0.606	0.96
228_F	232_I	0.606	0.96
128_A	132_T	0.605	0.96
74_G	157_A	0.605	0.96
105_E	270_L	0.603	0.96
217_D	220_D	0.598	0.95
242_V	282_A	0.597	0.95
156_S	168_F	0.596	0.95
241_F	281_C	0.592	0.95
35_M	46_E	0.592	0.95
27_L	73_I	0.588	0.95
230_E	233_P	0.585	0.95
122_V	145_V	0.585	0.95
39_K	46_E	0.582	0.95
11_A	25_A	0.580	0.94
52_E	55_R	0.578	0.94
26_E	30_L	0.578	0.94
18_A	21_E	0.578	0.94
98_E	102_H	0.577	0.94
115_G	139_S	0.577	0.94
131_V	166_V	0.576	0.94
88_D	211_P	0.576	0.94
126_S	154_V	0.573	0.94
51_D	55_R	0.572	0.94
198_E	247_G	0.572	0.94
146_D	155_A	0.572	0.94
117_L	137_N	0.571	0.94
60_V	64_K	0.568	0.94
187_I	235_V	0.567	0.94
83_F	162_L	0.566	0.94
63_H	72_I	0.566	0.94
202_L	215_L	0.566	0.94
187_I	232_I	0.562	0.94
130_A	168_F	0.561	0.93
33_T	52_E	0.559	0.93
221_G	250_Q	0.557	0.93
12_S	16_T	0.555	0.93
133_L	137_N	0.554	0.93
213_H	224_F	0.553	0.93
108_R	114_D	0.550	0.93
255_K	280_I	0.548	0.93
147_I	170_Q	0.547	0.93
27_L	31_Y	0.547	0.93
30_L	37_R	0.547	0.93
58_R	62_M	0.546	0.93
233_P	261_A	0.540	0.92
116_K	139_S	0.540	0.92
71_Y	85_V	0.539	0.92
148_S	154_V	0.538	0.92
253_A	256_D	0.537	0.92
181_G	234_L	0.537	0.92
107_Y	140_F	0.536	0.92
152_L	156_S	0.535	0.92
11_A	15_L	0.535	0.92
204_E	207_R	0.532	0.92
66_G	203_S	0.530	0.91
243_V	279_T	0.530	0.91
10_W	60_V	0.529	0.91
39_K	42_A	0.528	0.91
120_V	145_V	0.525	0.91
120_V	187_I	0.524	0.91
254_V	280_I	0.524	0.91
202_L	217_D	0.523	0.91
189_S	228_F	0.521	0.91
195_S	220_D	0.521	0.91
117_L	185_D	0.519	0.91
197_E	219_G	0.519	0.91
133_L	140_F	0.518	0.90
198_E	201_D	0.517	0.90
18_A	22_E	0.517	0.90
85_V	126_S	0.515	0.90
79_Y	135_L	0.512	0.90
169_Y	176_P	0.512	0.90
232_I	236_M	0.512	0.90
199_M	203_S	0.511	0.90
7_A	57_K	0.509	0.90
86_N	89_V	0.508	0.90
194_I	206_V	0.507	0.90
207_R	216_T	0.507	0.90
246_I	277_D	0.506	0.89
145_V	176_P	0.505	0.89
37_R	41_L	0.503	0.89
244_F	254_V	0.502	0.89
78_F	132_T	0.502	0.89
134_A	164_A	0.501	0.89
103_L	133_L	0.501	0.89
18_A	23_N	0.500	0.89

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
2b3tA	1	0.9549	100	0.36	Contact Map
1nv8A	1	0.9306	100	0.364	Contact Map
4dzrA	2	0.5451	100	0.629	Contact Map
3c6kA	2	0.8542	100	0.664	Contact Map
3tm4A	1	0.8958	100	0.665	Contact Map
1uwvA	1	0.8403	100	0.666	Contact Map
4dcmA	1	0.809	100	0.669	Contact Map
3evzA	1	0.6632	100	0.672	Contact Map
4mtlA	4	0.7049	100	0.693	Contact Map
1uirA	4	0.7708	100	0.694	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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