DUF2099 - PFAM28P - GREMLIN Contacts

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DUF2099 - Uncharacterized protein conserved in archaea (DUF2099)

PFAM:	PF09872	Sequences: HVIEALGKARVVIRDGKVVEVGEPLIEYCPLFKKARGIKEITKEAVKENIEFRIKDFGMCTPNRELEMDRDFVGFGASEILSTGLRRGLIDAAVIVCDGAGTVIVTNPELVQGIGGRMSGLVETSPIPEVIERIEEEGGIVLDPETARIDQVAGVKKAIELGYKKIAVTVASAEDAEKIRELEPELGVDILIFAVHTTGISEEEAERLFENADIVTACASKHIREIAGKKALLQAGTSIPVFALTEKGKELLLERAK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	257 (255)
Sequences:	545 (362)
Seq/√Len:	22.7
META:	0.855

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
85_L	111_V	5.538	1.00
33_K	39_K	4.274	1.00
9_A	46_V	3.657	1.00
12_V	20_E	3.291	1.00
159_I	166_I	3.254	1.00
27_E	40_E	2.976	1.00
98_D	130_V	2.918	0.99
47_K	51_E	2.914	0.99
62_P	129_E	2.824	0.99
177_E	207_R	2.779	0.99
84_G	251_L	2.771	0.99
100_A	134_I	2.726	0.99
9_A	22_G	2.699	0.99
3_I	60_C	2.637	0.99
171_A	195_V	2.593	0.99
96_V	149_I	2.555	0.98
18_V	21_V	2.550	0.98
102_T	154_G	2.549	0.98
135_E	144_P	2.529	0.98
51_E	55_K	2.526	0.98
23_E	43_K	2.508	0.98
69_D	109_E	2.492	0.98
118_M	121_L	2.436	0.98
148_R	153_A	2.416	0.98
132_E	136_E	2.386	0.98
157_K	161_L	2.373	0.98
97_C	114_I	2.357	0.97
52_F	56_D	2.223	0.96
201_S	204_E	2.116	0.95
90_I	167_A	2.089	0.95
41_I	45_A	2.088	0.95
143_D	148_R	2.079	0.95
179_I	190_I	2.038	0.94
155_V	190_I	2.003	0.93
77_A	214_I	1.966	0.93
180_R	192_I	1.950	0.92
178_K	181_E	1.925	0.92
249_K	253_L	1.901	0.91
122_V	146_T	1.893	0.91
36_R	52_F	1.867	0.91
81_L	90_I	1.817	0.89
153_A	156_K	1.746	0.87
81_L	93_A	1.742	0.87
97_C	115_G	1.709	0.86
81_L	241_V	1.680	0.85
81_L	85_L	1.634	0.84
193_F	214_I	1.632	0.84
57_F	117_R	1.625	0.83
165_K	189_D	1.623	0.83
12_V	22_G	1.593	0.82
41_I	46_V	1.587	0.82
131_I	144_P	1.562	0.81
172_S	175_D	1.530	0.79
73_V	77_A	1.528	0.79
131_I	141_V	1.527	0.79
116_G	130_V	1.527	0.79
231_A	234_Q	1.519	0.79
67_E	137_E	1.504	0.78
49_N	53_R	1.503	0.78
210_E	230_K	1.496	0.78
14_R	123_E	1.496	0.78
110_L	137_E	1.442	0.75
67_E	109_E	1.440	0.75
98_D	118_M	1.417	0.74
2_V	12_V	1.409	0.73
143_D	146_T	1.402	0.73
13_I	19_V	1.364	0.71
66_L	133_R	1.346	0.70
88_G	170_V	1.340	0.69
71_D	74_G	1.305	0.67
194_A	197_T	1.287	0.66
110_L	139_G	1.283	0.66
44_E	48_E	1.278	0.66
133_R	137_E	1.276	0.65
81_L	193_F	1.266	0.65
42_T	45_A	1.242	0.63
247_K	250_E	1.232	0.63
193_F	241_V	1.229	0.63
18_V	47_K	1.227	0.62
177_E	181_E	1.226	0.62
81_L	167_A	1.226	0.62
207_R	211_N	1.213	0.61
134_I	139_G	1.202	0.61
80_I	252_L	1.200	0.61
43_K	46_V	1.192	0.60
71_D	116_G	1.187	0.60
150_D	153_A	1.184	0.60
83_T	255_R	1.177	0.59
54_I	202_E	1.167	0.58
130_V	133_R	1.160	0.58
107_N	110_L	1.152	0.57
45_A	48_E	1.136	0.56
197_T	215_V	1.136	0.56
67_E	107_N	1.117	0.55
125_S	128_P	1.107	0.54
32_F	53_R	1.099	0.54
32_F	38_I	1.099	0.54
32_F	37_G	1.094	0.53
74_G	216_T	1.092	0.53
32_F	36_R	1.090	0.53
2_V	123_E	1.085	0.53
156_K	182_L	1.079	0.52
53_R	119_S	1.077	0.52
66_L	110_L	1.073	0.52
22_G	128_P	1.037	0.50
148_R	181_E	1.035	0.49
167_A	193_F	1.030	0.49
177_E	211_N	1.029	0.49
231_A	241_V	1.027	0.49
116_G	227_A	1.023	0.49
135_E	138_G	1.017	0.48
128_P	225_E	1.011	0.48
110_L	114_I	1.008	0.48
233_L	253_L	1.006	0.47
32_F	52_F	1.004	0.47
191_L	251_L	0.986	0.46
214_I	241_V	0.966	0.45
166_I	188_V	0.965	0.45
114_I	231_A	0.962	0.44
24_P	42_T	0.960	0.44
252_L	255_R	0.948	0.43
152_V	208_L	0.944	0.43
32_F	49_N	0.943	0.43
31_L	195_V	0.939	0.43
54_I	61_T	0.936	0.43
60_C	98_D	0.934	0.42
194_A	212_A	0.933	0.42
54_I	57_F	0.933	0.42
110_L	134_I	0.933	0.42
50_I	57_F	0.927	0.42
126_P	131_I	0.924	0.42
50_I	143_D	0.924	0.42
50_I	53_R	0.924	0.42
165_K	251_L	0.923	0.42
3_I	114_I	0.923	0.42
6_L	118_M	0.921	0.42
15_D	125_S	0.921	0.42
121_L	149_I	0.919	0.41
159_I	188_V	0.918	0.41
104_I	140_I	0.917	0.41
62_P	127_I	0.915	0.41
66_L	255_R	0.912	0.41
15_D	80_I	0.908	0.41
230_K	242_F	0.908	0.41
215_V	223_I	0.907	0.41
165_K	191_L	0.901	0.40
106_T	163_Y	0.898	0.40
106_T	138_G	0.887	0.39
46_V	50_I	0.880	0.39
25_L	198_T	0.876	0.39
116_G	119_S	0.872	0.38
17_K	184_P	0.870	0.38
35_A	46_V	0.859	0.37
57_F	60_C	0.855	0.37
245_T	249_K	0.852	0.37
114_I	120_G	0.849	0.37
73_V	135_E	0.849	0.37
99_G	115_G	0.833	0.36
35_A	74_G	0.830	0.36
114_I	195_V	0.829	0.36
5_A	46_V	0.829	0.36
34_K	123_E	0.828	0.36
94_V	111_V	0.826	0.35
173_A	200_I	0.820	0.35
67_E	77_A	0.819	0.35
123_E	237_T	0.819	0.35
13_I	217_A	0.818	0.35
125_S	131_I	0.815	0.35
234_Q	237_T	0.800	0.34
183_E	190_I	0.799	0.34
189_D	247_K	0.795	0.33
35_A	73_V	0.794	0.33
49_N	119_S	0.792	0.33
212_A	215_V	0.789	0.33
235_A	255_R	0.787	0.33
12_V	16_G	0.786	0.33
106_T	134_I	0.784	0.33
40_E	223_I	0.780	0.33
59_M	98_D	0.779	0.32
238_S	256_A	0.776	0.32
1_H	4_E	0.774	0.32
209_F	226_I	0.772	0.32
119_S	216_T	0.769	0.32
237_T	256_A	0.767	0.32
157_K	160_E	0.762	0.31
215_V	249_K	0.762	0.31
84_G	92_A	0.760	0.31
151_Q	193_F	0.758	0.31
96_V	151_Q	0.753	0.31
12_V	21_V	0.752	0.31
138_G	167_A	0.751	0.31
26_I	219_A	0.749	0.31
33_K	121_L	0.747	0.31
196_H	218_C	0.747	0.31
19_V	108_P	0.745	0.30
16_G	63_N	0.744	0.30
95_I	114_I	0.743	0.30
93_A	187_G	0.731	0.30
2_V	117_R	0.730	0.30
173_A	207_R	0.730	0.30
163_Y	174_E	0.723	0.29
140_I	192_I	0.721	0.29
96_V	121_L	0.721	0.29
156_K	185_E	0.721	0.29
205_A	223_I	0.718	0.29
132_E	137_E	0.718	0.29
36_R	53_R	0.717	0.29
89_L	194_A	0.711	0.29
127_I	198_T	0.710	0.28
13_I	60_C	0.710	0.28
125_S	149_I	0.708	0.28
169_T	192_I	0.704	0.28
11_V	52_F	0.702	0.28
42_T	69_D	0.701	0.28
90_I	117_R	0.698	0.28
80_I	83_T	0.698	0.28
9_A	90_I	0.698	0.28
195_V	252_L	0.697	0.28
42_T	194_A	0.697	0.28
206_E	211_N	0.694	0.28
31_L	194_A	0.691	0.27
38_I	245_T	0.690	0.27
66_L	130_V	0.688	0.27
62_P	164_K	0.685	0.27
6_L	32_F	0.685	0.27
48_E	55_K	0.685	0.27
202_E	225_E	0.680	0.27
36_R	68_M	0.678	0.27
145_E	155_V	0.677	0.27
85_L	193_F	0.676	0.27
49_N	72_F	0.676	0.27
100_A	103_V	0.676	0.27
128_P	170_V	0.673	0.26
77_A	169_T	0.671	0.26
12_V	19_V	0.665	0.26
171_A	175_D	0.665	0.26
62_P	100_A	0.663	0.26
28_Y	193_F	0.662	0.26
43_K	123_E	0.659	0.26
95_I	111_V	0.657	0.26
17_K	144_P	0.657	0.26
66_L	137_E	0.657	0.26
87_R	250_E	0.655	0.25
155_V	168_V	0.654	0.25
65_E	169_T	0.652	0.25
100_A	232_L	0.651	0.25
221_K	230_K	0.651	0.25
92_A	104_I	0.650	0.25
15_D	88_G	0.649	0.25
3_I	50_I	0.649	0.25
119_S	196_H	0.647	0.25
98_D	141_V	0.647	0.25
82_S	256_A	0.647	0.25
2_V	14_R	0.647	0.25
74_G	194_A	0.646	0.25
6_L	39_K	0.646	0.25
140_I	157_K	0.645	0.25
113_G	119_S	0.644	0.25
229_K	239_I	0.644	0.25
232_L	235_A	0.644	0.25
239_I	256_A	0.643	0.25
42_T	103_V	0.642	0.25
189_D	201_S	0.637	0.25
206_E	210_E	0.637	0.25
13_I	95_I	0.636	0.24
216_T	235_A	0.633	0.24
165_K	247_K	0.630	0.24
8_K	22_G	0.627	0.24
93_A	235_A	0.625	0.24
188_V	238_S	0.624	0.24
13_I	237_T	0.621	0.24
203_E	223_I	0.620	0.24
26_I	38_I	0.620	0.24
170_V	194_A	0.619	0.24
146_T	153_A	0.617	0.24
15_D	129_E	0.616	0.23
224_R	239_I	0.616	0.23
89_L	198_T	0.613	0.23
12_V	61_T	0.612	0.23
85_L	247_K	0.611	0.23
209_F	244_L	0.608	0.23
172_S	178_K	0.607	0.23
92_A	192_I	0.606	0.23
96_V	210_E	0.605	0.23
9_A	92_A	0.605	0.23
115_G	120_G	0.605	0.23
44_E	47_K	0.604	0.23
3_I	118_M	0.604	0.23
167_A	200_I	0.600	0.23
115_G	118_M	0.600	0.23
97_C	118_M	0.599	0.23
49_N	117_R	0.599	0.23
27_E	104_I	0.599	0.23
233_L	243_A	0.597	0.23
21_V	113_G	0.595	0.22
99_G	114_I	0.592	0.22
3_I	98_D	0.589	0.22
44_E	167_A	0.586	0.22
103_V	141_V	0.584	0.22
134_I	141_V	0.583	0.22
86_R	214_I	0.583	0.22
38_I	49_N	0.583	0.22
196_H	216_T	0.581	0.22
153_A	221_K	0.581	0.22
19_V	104_I	0.581	0.22
93_A	148_R	0.580	0.22
95_I	193_F	0.577	0.22
204_E	225_E	0.576	0.22
152_V	165_K	0.573	0.21
74_G	139_G	0.569	0.21
26_I	198_T	0.568	0.21
10_R	18_V	0.568	0.21
49_N	196_H	0.567	0.21
193_F	216_T	0.567	0.21
76_G	112_Q	0.565	0.21
227_A	234_Q	0.562	0.21
6_L	41_I	0.561	0.21
97_C	163_Y	0.558	0.21
52_F	96_V	0.558	0.21
95_I	197_T	0.557	0.21
106_T	243_A	0.557	0.21
95_I	215_V	0.557	0.21
115_G	231_A	0.555	0.21
53_R	196_H	0.554	0.21
4_E	196_H	0.554	0.21
116_G	141_V	0.554	0.21
35_A	72_F	0.551	0.20
49_N	113_G	0.551	0.20
77_A	147_A	0.548	0.20
61_T	163_Y	0.548	0.20
54_I	174_E	0.545	0.20
104_I	182_L	0.545	0.20
92_A	156_K	0.545	0.20
192_I	206_E	0.543	0.20
5_A	50_I	0.543	0.20
8_K	19_V	0.539	0.20
42_T	46_V	0.538	0.20
173_A	192_I	0.538	0.20
202_E	222_H	0.536	0.20
36_R	48_E	0.536	0.20
142_L	223_I	0.536	0.20
63_N	221_K	0.534	0.20
152_V	174_E	0.534	0.20
135_E	209_F	0.534	0.20
104_I	176_A	0.534	0.20
135_E	214_I	0.532	0.20
73_V	242_F	0.531	0.20
142_L	157_K	0.530	0.19
241_V	251_L	0.529	0.19
16_G	218_C	0.529	0.19
34_K	80_I	0.528	0.19
80_I	132_E	0.528	0.19
151_Q	208_L	0.528	0.19
66_L	235_A	0.526	0.19
150_D	245_T	0.522	0.19
176_A	196_H	0.522	0.19
13_I	215_V	0.521	0.19
93_A	193_F	0.521	0.19
9_A	43_K	0.520	0.19
10_R	118_M	0.520	0.19
83_T	96_V	0.517	0.19
133_R	179_I	0.517	0.19
75_F	196_H	0.515	0.19
59_M	167_A	0.514	0.19
6_L	38_I	0.513	0.19
168_V	176_A	0.510	0.19
74_G	86_R	0.508	0.19
53_R	74_G	0.508	0.19
11_V	178_K	0.508	0.19
200_I	215_V	0.508	0.19
33_K	37_G	0.507	0.18
6_L	216_T	0.507	0.18
5_A	11_V	0.507	0.18
41_I	193_F	0.506	0.18
21_V	72_F	0.504	0.18
17_K	24_P	0.503	0.18
6_L	34_K	0.501	0.18
153_A	243_A	0.501	0.18
172_S	235_A	0.501	0.18
169_T	208_L	0.500	0.18
10_R	61_T	0.500	0.18
231_A	243_A	0.500	0.18

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
3hutA	1	0.7626	53.9	0.968	Contact Map
2obnA	2	0.642	46.8	0.969	Contact Map
3zihA	2	0.2996	32.6	0.972	Contact Map
4omfB	1	0.6187	28.6	0.973	Contact Map
3zieA	2	0.2996	24.9	0.973	Contact Map
3nytA	2	0.786	23.3	0.974	Contact Map
4f06A	1	0.7588	22.1	0.974	Contact Map
3uk0A	1	0.7782	20.3	0.974	Contact Map
3ou5A	2	0.7237	18.9	0.975	Contact Map
4utuA	2	0.7393	18.7	0.975	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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