RBGA - BACSU - GREMLIN Contacts

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RBGA - Ribosome biogenesis GTPase A

UniProt:	O31743	Sequences: MTIQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDILKNKPRIMLLNKADKADAAVTQQWKEHFENQGIRSLSINSVNGQGLNQIVPASKEILQEKFDRMRAKGVKPRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQWVKVGKELELLDTPGILWPKFEDELVGLRLAVTGAIKDSIINLQDVAVFGLRFLEEHYPERLKERYGLDEIPEDIAELFDAIGEKRGCLMSGGLINYDKTTEVIIRDIRTEKFGRLSFEQPTM	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	282 (267)
Sequences:	3193 (2117)
Seq/√Len:	129.5

BACSU - RBGA
SULSO - Q7LXT6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
242_G	254_I	4.522	1.00
67_V	276_S	4.265	1.00
35_I	192_T	3.667	1.00
225_Y	266_D	2.690	1.00
149_G	154_I	2.634	1.00
30_L	136_L	2.613	1.00
11_A	15_R	2.609	1.00
233_D	236_E	2.562	1.00
74_H	78_Q	2.534	1.00
40_R	45_E	2.494	1.00
72_K	82_S	2.466	1.00
37_M	75_F	2.451	1.00
72_K	84_S	2.301	1.00
147_K	154_I	2.211	1.00
236_E	240_A	2.180	1.00
141_A	161_V	2.179	1.00
191_V	209_G	2.167	1.00
56_L	85_I	2.125	1.00
69_Q	73_E	2.084	1.00
209_G	267_I	2.060	1.00
63_A	68_T	2.051	1.00
65_A	274_R	2.047	1.00
72_K	76_E	2.006	1.00
67_V	70_Q	1.978	1.00
241_I	259_T	1.954	1.00
43_M	46_D	1.949	1.00
28_Y	100_S	1.887	1.00
255_N	258_K	1.881	1.00
68_T	84_S	1.859	1.00
237_L	241_I	1.857	1.00
247_C	262_V	1.855	1.00
220_R	223_E	1.853	1.00
54_I	99_A	1.851	1.00
212_F	216_H	1.840	1.00
219_E	222_K	1.820	1.00
267_I	277_F	1.800	1.00
14_R	18_T	1.778	1.00
211_R	214_E	1.755	1.00
35_I	39_S	1.755	1.00
31_V	55_M	1.749	1.00
86_N	89_N	1.730	1.00
62_K	270_E	1.710	1.00
245_R	262_V	1.703	1.00
65_A	69_Q	1.678	1.00
125_I	136_L	1.669	1.00
238_F	259_T	1.643	1.00
188_R	278_E	1.638	1.00
99_A	102_E	1.609	1.00
247_C	258_K	1.602	1.00
222_K	228_D	1.583	1.00
24_I	124_L	1.573	1.00
257_D	261_E	1.558	1.00
17_V	124_L	1.548	1.00
243_E	248_L	1.546	1.00
141_A	145_I	1.534	1.00
66_A	70_Q	1.529	1.00
265_R	269_T	1.528	1.00
266_D	271_K	1.528	1.00
96_I	136_L	1.520	1.00
160_W	170_L	1.514	1.00
249_M	255_N	1.513	1.00
7_P	10_M	1.493	1.00
210_L	237_L	1.476	1.00
238_F	263_I	1.476	1.00
28_Y	56_L	1.471	1.00
221_L	225_Y	1.459	1.00
235_A	239_D	1.451	1.00
80_I	84_S	1.447	1.00
243_E	254_I	1.446	1.00
162_K	168_E	1.440	1.00
219_E	223_E	1.437	1.00
96_I	100_S	1.436	1.00
31_V	57_L	1.428	1.00
216_H	279_Q	1.414	1.00
15_R	19_E	1.408	1.00
150_D	269_T	1.408	1.00
236_E	239_D	1.392	1.00
184_L	188_R	1.384	1.00
100_S	103_I	1.379	1.00
206_A	260_T	1.374	1.00
30_L	58_N	1.373	1.00
73_E	77_N	1.365	1.00
56_L	83_L	1.359	1.00
101_K	166_E	1.356	1.00
220_R	272_F	1.354	1.00
16_E	20_K	1.350	1.00
241_I	263_I	1.344	1.00
73_E	76_E	1.339	1.00
196_K	199_I	1.338	1.00
58_N	87_S	1.329	1.00
261_E	265_R	1.324	1.00
56_L	96_I	1.306	1.00
45_E	53_R	1.300	1.00
222_K	227_L	1.296	1.00
180_F	186_G	1.287	1.00
20_K	158_Q	1.280	1.00
16_E	158_Q	1.279	1.00
16_E	19_E	1.266	1.00
67_V	279_Q	1.258	1.00
222_K	229_E	1.258	1.00
249_M	253_L	1.255	1.00
75_F	78_Q	1.244	1.00
240_A	243_E	1.235	1.00
26_I	104_L	1.230	1.00
239_D	243_E	1.229	1.00
29_E	40_R	1.229	1.00
104_L	108_F	1.223	1.00
81_R	102_E	1.222	1.00
81_R	99_A	1.221	1.00
86_N	91_Q	1.217	1.00
235_A	256_Y	1.217	1.00
207_V	234_I	1.212	0.99
70_Q	73_E	1.210	0.99
102_E	105_Q	1.202	0.99
191_V	267_I	1.199	0.99
136_L	140_L	1.167	0.99
80_I	85_I	1.163	0.99
29_E	55_M	1.130	0.99
147_K	159_Q	1.111	0.99
242_G	259_T	1.104	0.99
81_R	85_I	1.100	0.99
46_D	50_N	1.098	0.99
182_D	185_V	1.085	0.99
135_T	148_T	1.082	0.99
248_L	252_G	1.077	0.99
31_V	40_R	1.075	0.99
76_E	81_R	1.073	0.99
29_E	53_R	1.071	0.99
17_V	126_I	1.068	0.99
239_D	256_Y	1.047	0.98
124_L	172_T	1.041	0.98
188_R	212_F	1.041	0.98
104_L	107_K	1.026	0.98
262_V	266_D	1.012	0.98
14_R	43_M	1.011	0.98
247_C	259_T	1.010	0.98
28_Y	125_I	1.008	0.98
18_T	43_M	1.007	0.98
28_Y	123_A	1.007	0.98
256_Y	259_T	1.005	0.98
27_V	48_L	1.002	0.98
158_Q	172_T	1.002	0.98
207_V	211_R	0.997	0.98
31_V	39_S	0.997	0.98
240_A	244_K	0.994	0.98
100_S	108_F	0.992	0.98
97_V	101_K	0.991	0.98
46_D	49_K	0.980	0.98
211_R	215_E	0.979	0.98
71_W	74_H	0.969	0.97
105_Q	108_F	0.965	0.97
200_I	205_V	0.954	0.97
8_G	12_K	0.953	0.97
160_W	168_E	0.952	0.97
26_I	103_I	0.950	0.97
17_V	175_I	0.948	0.97
68_T	276_S	0.944	0.97
38_S	188_R	0.939	0.97
92_G	95_Q	0.936	0.97
64_D	217_Y	0.936	0.97
189_L	194_A	0.933	0.97
57_L	71_W	0.932	0.97
199_I	202_L	0.931	0.97
211_R	234_I	0.927	0.97
197_D	205_V	0.916	0.96
267_I	270_E	0.915	0.96
28_Y	54_I	0.914	0.96
197_D	268_R	0.914	0.96
56_L	136_L	0.914	0.96
95_Q	98_P	0.910	0.96
82_S	85_I	0.909	0.96
90_G	139_R	0.907	0.96
92_G	96_I	0.893	0.96
20_K	23_L	0.890	0.96
203_Q	256_Y	0.886	0.96
40_R	55_M	0.880	0.96
211_R	233_D	0.878	0.96
71_W	75_F	0.878	0.96
128_I	176_L	0.877	0.95
103_I	106_E	0.874	0.95
122_R	160_W	0.872	0.95
41_N	172_T	0.863	0.95
254_I	259_T	0.861	0.95
201_N	205_V	0.857	0.95
48_L	126_I	0.844	0.94
116_V	119_R	0.843	0.94
187_L	191_V	0.841	0.94
99_A	103_I	0.839	0.94
187_L	204_D	0.837	0.94
267_I	275_L	0.834	0.94
95_Q	99_A	0.821	0.94
96_I	104_L	0.821	0.94
48_L	53_R	0.820	0.94
83_L	87_S	0.820	0.94
193_G	196_K	0.819	0.94
259_T	263_I	0.816	0.93
28_Y	136_L	0.810	0.93
123_A	167_L	0.810	0.93
9_H	13_A	0.803	0.93
14_R	17_V	0.800	0.93
85_I	93_L	0.796	0.93
204_D	209_G	0.791	0.92
70_Q	74_H	0.781	0.92
207_V	235_A	0.779	0.92
209_G	277_F	0.775	0.92
26_I	123_A	0.774	0.91
54_I	103_I	0.771	0.91
234_I	237_L	0.769	0.91
250_S	253_L	0.765	0.91
58_N	86_N	0.765	0.91
71_W	278_E	0.757	0.91
210_L	234_I	0.748	0.90
92_G	99_A	0.740	0.90
224_R	227_L	0.737	0.89
214_E	234_I	0.736	0.89
209_G	263_I	0.734	0.89
13_A	17_V	0.734	0.89
268_R	277_F	0.731	0.89
228_D	232_E	0.730	0.89
122_R	168_E	0.730	0.89
64_D	67_V	0.730	0.89
207_V	238_F	0.722	0.88
59_K	62_K	0.720	0.88
222_K	230_I	0.719	0.88
25_D	51_K	0.718	0.88
209_G	213_L	0.717	0.88
14_R	46_D	0.715	0.88
104_L	121_I	0.715	0.88
103_I	107_K	0.714	0.88
118_P	166_E	0.714	0.88
204_D	208_F	0.714	0.88
216_H	220_R	0.712	0.88
197_D	200_I	0.711	0.88
82_S	86_N	0.710	0.88
85_I	96_I	0.709	0.87
80_I	83_L	0.708	0.87
81_R	84_S	0.707	0.87
201_N	204_D	0.706	0.87
58_N	163_V	0.706	0.87
218_P	222_K	0.703	0.87
54_I	96_I	0.700	0.87
60_A	68_T	0.697	0.87
210_L	263_I	0.697	0.87
201_N	212_F	0.696	0.87
33_A	57_L	0.688	0.86
237_L	263_I	0.685	0.86
242_G	245_R	0.684	0.86
11_A	19_E	0.684	0.86
90_G	93_L	0.682	0.85
180_F	185_V	0.680	0.85
155_T	171_D	0.679	0.85
120_A	168_E	0.678	0.85
91_Q	94_N	0.677	0.85
151_R	156_T	0.677	0.85
7_P	12_K	0.675	0.85
219_E	225_Y	0.675	0.85
242_G	252_G	0.672	0.85
191_V	205_V	0.669	0.84
101_K	105_Q	0.669	0.84
275_L	278_E	0.667	0.84
100_S	167_L	0.667	0.84
142_K	157_S	0.666	0.84
273_G	277_F	0.665	0.84
163_V	169_L	0.665	0.84
197_D	202_L	0.664	0.84
202_L	261_E	0.662	0.84
49_K	79_G	0.658	0.83
81_R	86_N	0.657	0.83
87_S	90_G	0.655	0.83
15_R	160_W	0.654	0.83
58_N	85_I	0.650	0.83
10_M	41_N	0.650	0.83
37_M	40_R	0.649	0.82
74_H	279_Q	0.645	0.82
264_I	267_I	0.644	0.82
191_V	208_F	0.641	0.82
117_K	167_L	0.638	0.81
206_A	210_L	0.638	0.81
176_L	193_G	0.637	0.81
140_L	163_V	0.636	0.81
191_V	194_A	0.635	0.81
56_L	93_L	0.632	0.81
11_A	18_T	0.632	0.81
12_K	160_W	0.631	0.81
227_L	230_I	0.630	0.81
10_M	176_L	0.629	0.80
208_F	211_R	0.629	0.80
26_I	168_E	0.626	0.80
249_M	252_G	0.625	0.80
63_A	276_S	0.624	0.80
263_I	267_I	0.621	0.80
16_E	156_T	0.620	0.80
248_L	254_I	0.619	0.79
33_A	63_A	0.619	0.79
13_A	158_Q	0.617	0.79
60_A	87_S	0.613	0.79
98_P	105_Q	0.612	0.79
191_V	264_I	0.610	0.78
193_G	197_D	0.608	0.78
221_L	224_R	0.608	0.78
145_I	161_V	0.605	0.78
139_R	144_N	0.603	0.78
11_A	16_E	0.602	0.78
205_V	208_F	0.602	0.78
89_N	92_G	0.602	0.78
132_G	174_G	0.601	0.77
204_D	207_V	0.599	0.77
25_D	58_N	0.597	0.77
37_M	74_H	0.596	0.77
217_Y	220_R	0.595	0.77
132_G	171_D	0.595	0.77
151_R	154_I	0.592	0.76
31_V	159_Q	0.592	0.76
129_P	153_G	0.591	0.76
29_E	41_N	0.590	0.76
225_Y	241_I	0.590	0.76
229_E	232_E	0.589	0.76
223_E	228_D	0.588	0.76
219_E	229_E	0.588	0.76
237_L	242_G	0.587	0.76
246_G	252_G	0.584	0.75
64_D	68_T	0.584	0.75
188_R	277_F	0.583	0.75
83_L	90_G	0.579	0.75
26_I	54_I	0.579	0.75
131_V	169_L	0.578	0.75
108_F	140_L	0.578	0.75
21_L	220_R	0.576	0.74
125_I	258_K	0.576	0.74
223_E	226_G	0.574	0.74
192_T	275_L	0.574	0.74
14_R	175_I	0.574	0.74
18_T	22_K	0.573	0.74
88_V	92_G	0.573	0.74
89_N	93_L	0.572	0.74
210_L	214_E	0.571	0.74
93_L	97_V	0.567	0.73
146_A	172_T	0.566	0.73
167_L	234_I	0.566	0.73
137_I	275_L	0.566	0.73
182_D	188_R	0.565	0.73
20_K	124_L	0.563	0.73
38_S	185_V	0.563	0.73
98_P	101_K	0.562	0.73
39_S	128_I	0.560	0.72
183_E	186_G	0.558	0.72
104_L	115_G	0.557	0.72
232_E	236_E	0.554	0.72
90_G	95_Q	0.552	0.71
171_D	174_G	0.548	0.71
76_E	82_S	0.548	0.71
232_E	237_L	0.547	0.71
117_K	120_A	0.546	0.70
90_G	96_I	0.545	0.70
230_I	237_L	0.545	0.70
69_Q	72_K	0.544	0.70
242_G	248_L	0.542	0.70
75_F	79_G	0.542	0.70
189_L	192_T	0.542	0.70
35_I	194_A	0.542	0.70
243_E	246_G	0.541	0.70
81_R	103_I	0.540	0.70
11_A	135_T	0.540	0.70
120_A	123_A	0.535	0.69
190_A	277_F	0.533	0.69
169_L	258_K	0.532	0.68
202_L	257_D	0.531	0.68
20_K	265_R	0.530	0.68
11_A	14_R	0.528	0.68
29_E	190_A	0.526	0.68
69_Q	84_S	0.526	0.68
70_Q	102_E	0.524	0.67
44_I	126_I	0.522	0.67
74_H	77_N	0.520	0.67
255_N	261_E	0.518	0.66
137_I	161_V	0.517	0.66
203_Q	207_V	0.516	0.66
182_D	186_G	0.514	0.66
38_S	195_I	0.514	0.66
45_E	49_K	0.513	0.66
20_K	24_I	0.509	0.65
10_M	14_R	0.509	0.65
124_L	197_D	0.509	0.65
96_I	103_I	0.508	0.65
57_L	84_S	0.508	0.65
239_D	254_I	0.508	0.65
161_V	169_L	0.507	0.65
10_M	13_A	0.507	0.65
93_L	108_F	0.507	0.65
40_R	44_I	0.507	0.65
67_V	278_E	0.505	0.64
84_S	87_S	0.505	0.64
132_G	155_T	0.504	0.64
176_L	179_K	0.502	0.64
242_G	247_C	0.502	0.64
207_V	256_Y	0.502	0.64
222_K	225_Y	0.502	0.64
30_L	118_P	0.501	0.64
88_V	97_V	0.501	0.64
27_V	126_I	0.500	0.64

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
1pujA	1	0.9255	100	0.25	Contact Map
3cnlA	1	0.8227	100	0.444	Contact Map
3h2yA	1	0.8865	100	0.666	Contact Map
3ec1A	1	0.8972	99.9	0.676	Contact Map
2yv5A	1	0.7589	99.9	0.678	Contact Map
1mkyA	1	0.9326	99.9	0.684	Contact Map
1t9hA	1	0.7305	99.9	0.692	Contact Map
4dcuA	1	0.8972	99.9	0.692	Contact Map
3j8gX	1	0.9433	99.9	0.704	Contact Map
1u0lA	1	0.7411	99.9	0.704	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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