PmoA - PFAM28P - GREMLIN Contacts

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PmoA - Methane oxygenase PmoA

PFAM:	PF14100	Sequences: KVDVTIDGKPFTSYVYGPGVDPDELRKPYLHPLRTPSGTVVTRGEPGDHPHHRGLWFAWGDVNGVDFWNESPAELKDGYGRIVHRKFLEVESGPDSGVLTAENDWVDPDGKVLLTETRTITFYALPDARLIDFEITLTALTDPVTFGDTKYGGFGIRVARELNEGGGGTILNSEGKTGEKAVWGKRARWVDYSGPVGDGETVGIAIFDHPSNPRHPTYWHVRDYGLFAANPTAPAGDGPLTLKPGESLTLRYRVVVHDGDADAAEIAALWQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	271 (259)
Sequences:	9762 (7328)
Seq/√Len:	455.3
META:	0.912

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_R	104_D	4.278	1.00
243_K	246_E	3.003	1.00
132_D	253_R	2.981	1.00
86_K	102_E	2.872	1.00
174_E	188_R	2.775	1.00
134_E	249_T	2.685	1.00
66_D	69_N	2.594	1.00
3_D	13_S	2.568	1.00
191_D	203_G	2.463	1.00
84_H	87_F	2.436	1.00
191_D	257_H	2.428	1.00
100_T	119_T	2.357	1.00
60_G	151_Y	2.325	1.00
45_E	48_D	2.290	1.00
173_S	187_A	2.244	1.00
265_E	268_A	2.210	1.00
136_T	247_S	2.185	1.00
172_N	176_K	2.130	1.00
186_R	218_Y	2.082	1.00
136_T	249_T	2.067	1.00
102_E	115_T	2.065	1.00
120_I	133_F	2.056	1.00
203_G	257_H	2.012	1.00
14_Y	84_H	2.007	1.00
104_D	112_V	1.993	1.00
115_T	140_L	1.976	1.00
83_V	106_V	1.949	1.00
88_L	102_E	1.835	1.00
88_L	100_T	1.812	1.00
33_L	55_L	1.796	1.00
262_D	265_E	1.786	1.00
169_T	177_T	1.766	1.00
107_D	111_K	1.758	1.00
34_R	40_V	1.744	1.00
142_D	244_P	1.731	1.00
138_T	247_S	1.699	1.00
145_T	241_T	1.697	1.00
143_P	243_K	1.692	1.00
205_A	266_I	1.670	1.00
104_D	115_T	1.667	1.00
117_T	136_T	1.650	1.00
89_E	100_T	1.650	1.00
119_T	134_E	1.628	1.00
112_V	140_L	1.608	1.00
10_P	13_S	1.607	1.00
154_F	254_V	1.602	1.00
172_N	182_V	1.573	1.00
176_K	185_K	1.543	1.00
207_F	255_V	1.540	1.00
121_T	134_E	1.538	1.00
188_R	267_A	1.536	1.00
6_I	11_F	1.517	1.00
100_T	117_T	1.514	1.00
55_L	254_V	1.514	1.00
91_E	98_V	1.501	1.00
61_D	147_G	1.501	1.00
134_E	251_R	1.494	1.00
208_D	212_N	1.494	1.00
96_S	121_T	1.492	1.00
67_F	113_L	1.483	1.00
182_V	221_V	1.480	1.00
123_Y	130_L	1.476	1.00
143_P	244_P	1.456	1.00
133_F	154_F	1.456	1.00
12_T	30_L	1.448	1.00
98_V	121_T	1.426	1.00
173_S	188_R	1.415	1.00
83_V	104_D	1.412	1.00
106_V	112_V	1.407	1.00
161_E	196_V	1.407	1.00
255_V	269_L	1.405	1.00
115_T	138_T	1.393	1.00
114_L	137_L	1.388	1.00
213_P	240_L	1.377	1.00
208_D	215_H	1.373	1.00
10_P	34_R	1.369	1.00
130_L	255_V	1.365	1.00
112_V	115_T	1.365	1.00
195_P	201_T	1.360	1.00
240_L	248_L	1.347	1.00
102_E	117_T	1.324	1.00
60_G	149_T	1.317	1.00
114_L	144_V	1.311	1.00
193_S	261_A	1.299	1.00
143_P	241_T	1.295	1.00
163_N	166_G	1.295	1.00
98_V	119_T	1.288	1.00
117_T	138_T	1.275	1.00
217_T	229_A	1.261	1.00
53_R	70_E	1.253	1.00
233_A	236_G	1.247	1.00
30_L	120_I	1.243	1.00
35_T	39_T	1.231	1.00
5_T	10_P	1.224	1.00
55_L	156_I	1.207	1.00
15_V	29_Y	1.206	1.00
170_I	182_V	1.202	1.00
5_T	8_G	1.200	1.00
191_D	205_A	1.199	1.00
35_T	258_D	1.192	1.00
60_G	66_D	1.181	1.00
172_N	185_K	1.179	1.00
89_E	98_V	1.169	1.00
167_G	195_P	1.165	1.00
209_H	251_R	1.164	1.00
88_L	117_T	1.154	1.00
170_I	221_V	1.151	1.00
146_F	242_L	1.147	1.00
62_V	105_W	1.135	1.00
4_V	12_T	1.130	1.00
82_I	103_N	1.125	1.00
158_V	192_Y	1.121	1.00
61_D	64_G	1.120	1.00
207_F	270_W	1.117	1.00
11_F	129_R	1.116	1.00
57_F	153_G	1.115	1.00
177_T	181_A	1.112	1.00
4_V	122_F	1.112	1.00
12_T	122_F	1.110	1.00
116_E	135_I	1.109	1.00
263_A	267_A	1.108	1.00
65_V	108_P	1.105	1.00
39_T	200_E	1.103	1.00
171_L	177_T	1.085	1.00
128_A	255_V	1.085	1.00
130_L	253_R	1.082	1.00
176_K	181_A	1.081	1.00
65_V	107_D	1.081	1.00
169_T	178_G	1.063	1.00
42_T	54_G	1.060	1.00
169_T	193_S	1.057	1.00
161_E	195_P	1.048	1.00
35_T	41_V	1.048	1.00
35_T	202_V	1.041	1.00
205_A	257_H	1.040	1.00
99_L	120_I	1.040	1.00
84_H	103_N	1.039	1.00
14_Y	101_A	1.037	1.00
3_D	10_P	1.032	1.00
260_D	263_A	1.029	1.00
156_I	204_I	1.025	1.00
93_G	97_G	1.022	1.00
44_G	53_R	1.017	1.00
103_N	116_E	1.015	1.00
30_L	33_L	1.013	1.00
214_R	240_L	1.010	1.00
61_D	149_T	1.008	1.00
232_T	235_A	1.006	1.00
111_K	141_T	1.004	1.00
37_S	258_D	1.003	1.00
84_H	101_A	0.998	1.00
188_R	215_H	0.992	1.00
95_D	123_Y	0.990	1.00
255_V	266_I	0.987	1.00
25_L	29_Y	0.984	1.00
87_F	101_A	0.982	1.00
96_S	123_Y	0.980	1.00
17_G	24_E	0.978	1.00
33_L	256_V	0.968	1.00
31_H	54_G	0.964	1.00
213_P	248_L	0.956	1.00
158_V	204_I	0.952	1.00
128_A	269_L	0.951	1.00
85_R	102_E	0.950	1.00
172_N	187_A	0.949	1.00
267_A	270_W	0.949	1.00
171_L	263_A	0.935	1.00
232_T	236_G	0.928	1.00
200_E	258_D	0.924	1.00
57_F	135_I	0.919	1.00
145_T	239_P	0.909	1.00
69_N	149_T	0.907	1.00
93_G	96_S	0.906	1.00
43_R	160_R	0.904	1.00
31_H	44_G	0.902	1.00
27_K	70_E	0.899	1.00
174_E	187_A	0.895	1.00
242_L	248_L	0.890	1.00
171_L	193_S	0.882	1.00
71_S	79_Y	0.882	1.00
39_T	198_D	0.881	1.00
41_V	256_V	0.874	1.00
31_H	42_T	0.873	1.00
179_E	223_D	0.870	1.00
129_R	256_V	0.869	1.00
6_I	124_A	0.860	1.00
59_W	153_G	0.859	1.00
257_H	261_A	0.859	1.00
178_G	181_A	0.852	1.00
29_Y	44_G	0.850	1.00
60_G	69_N	0.846	1.00
214_R	217_T	0.846	1.00
82_I	105_W	0.831	1.00
112_V	141_T	0.830	1.00
65_V	80_G	0.829	1.00
31_H	40_V	0.824	1.00
260_D	264_A	0.817	1.00
85_R	106_V	0.816	1.00
214_R	238_G	0.816	1.00
114_L	242_L	0.814	1.00
95_D	124_A	0.806	1.00
119_T	136_T	0.802	1.00
4_V	99_L	0.800	1.00
163_N	167_G	0.799	1.00
33_L	131_I	0.794	1.00
125_L	130_L	0.792	1.00
215_H	270_W	0.791	1.00
228_A	231_P	0.789	1.00
101_A	118_R	0.780	1.00
155_G	228_A	0.780	1.00
176_K	179_E	0.780	1.00
92_S	97_G	0.772	1.00
30_L	55_L	0.769	1.00
87_F	90_V	0.767	1.00
125_L	128_A	0.762	1.00
49_H	52_H	0.761	1.00
114_L	146_F	0.757	1.00
132_D	251_R	0.754	1.00
182_V	223_D	0.754	1.00
141_T	244_P	0.748	1.00
162_L	196_V	0.747	1.00
144_V	242_L	0.742	1.00
39_T	202_V	0.742	1.00
261_A	265_E	0.741	1.00
9_K	129_R	0.733	1.00
137_L	146_F	0.727	1.00
103_N	118_R	0.727	1.00
162_L	194_G	0.725	1.00
122_F	131_I	0.723	1.00
105_W	137_L	0.719	1.00
30_L	122_F	0.718	1.00
264_A	268_A	0.716	1.00
196_V	202_V	0.715	1.00
150_K	183_W	0.713	1.00
123_Y	132_D	0.710	1.00
36_P	129_R	0.707	1.00
170_I	192_Y	0.707	1.00
164_E	167_G	0.706	1.00
46_P	160_R	0.705	1.00
56_W	155_G	0.704	1.00
172_N	190_V	0.702	1.00
190_V	227_F	0.700	1.00
171_L	261_A	0.699	1.00
168_G	173_S	0.696	1.00
224_Y	228_A	0.690	1.00
206_I	254_V	0.689	1.00
7_D	124_A	0.685	1.00
242_L	246_E	0.684	1.00
147_G	239_P	0.683	1.00
81_R	106_V	0.682	1.00
84_H	88_L	0.681	1.00
118_R	135_I	0.680	1.00
186_R	237_D	0.679	1.00
203_G	259_G	0.677	1.00
208_D	217_T	0.677	1.00
167_G	194_G	0.676	1.00
208_D	216_P	0.675	1.00
197_G	200_E	0.673	1.00
168_G	192_Y	0.671	1.00
225_G	228_A	0.669	1.00
211_S	251_R	0.668	1.00
118_R	133_F	0.664	1.00
70_E	80_G	0.659	1.00
40_V	44_G	0.654	1.00
85_R	115_T	0.652	1.00
266_I	270_W	0.651	1.00
149_T	153_G	0.651	1.00
233_A	237_D	0.650	1.00
63_N	144_V	0.650	1.00
180_K	223_D	0.650	1.00
103_N	135_I	0.650	1.00
188_R	270_W	0.649	1.00
63_N	145_T	0.648	1.00
62_V	67_F	0.648	1.00
124_A	127_D	0.647	1.00
57_F	133_F	0.643	1.00
106_V	110_G	0.642	1.00
37_S	202_V	0.641	1.00
63_N	147_G	0.640	0.99
30_L	131_I	0.638	0.99
209_H	212_N	0.638	0.99
69_N	79_Y	0.634	0.99
139_A	242_L	0.630	0.99
76_K	79_Y	0.629	0.99
158_V	162_L	0.629	0.99
130_L	269_L	0.627	0.99
57_F	137_L	0.626	0.99
55_L	133_F	0.626	0.99
6_I	129_R	0.625	0.99
264_A	267_A	0.623	0.99
218_Y	237_D	0.621	0.99
107_D	113_L	0.617	0.99
226_L	230_N	0.615	0.99
261_A	266_I	0.614	0.99
169_T	260_D	0.612	0.99
123_Y	131_I	0.612	0.99
219_W	229_A	0.611	0.99
140_L	244_P	0.610	0.99
262_D	266_I	0.605	0.99
161_E	198_D	0.602	0.99
226_L	231_P	0.601	0.99
195_P	199_G	0.598	0.99
37_S	200_E	0.596	0.99
159_A	196_V	0.593	0.99
43_R	47_G	0.593	0.99
221_V	227_F	0.593	0.99
91_E	96_S	0.592	0.99
207_F	253_R	0.591	0.99
67_F	107_D	0.588	0.99
105_W	114_L	0.586	0.99
183_W	220_H	0.585	0.99
235_A	240_L	0.583	0.99
116_E	120_I	0.582	0.99
39_T	196_V	0.582	0.99
232_T	237_D	0.580	0.99
206_I	229_A	0.577	0.99
260_D	265_E	0.572	0.99
159_A	162_L	0.570	0.99
243_K	247_S	0.570	0.99
90_V	99_L	0.569	0.99
170_I	190_V	0.568	0.99
29_Y	53_R	0.566	0.99
168_G	172_N	0.565	0.99
207_F	210_P	0.565	0.99
265_E	269_L	0.564	0.99
61_D	145_T	0.564	0.99
124_A	129_R	0.563	0.99
55_L	154_F	0.561	0.99
6_I	97_G	0.560	0.99
26_R	76_K	0.560	0.99
41_V	202_V	0.559	0.99
135_I	250_L	0.558	0.99
186_R	208_D	0.558	0.99
35_T	38_G	0.558	0.99
151_Y	220_H	0.555	0.99
71_S	77_D	0.550	0.98
92_S	95_D	0.550	0.98
220_H	226_L	0.544	0.98
226_L	229_A	0.543	0.98
148_D	238_G	0.543	0.98
105_W	118_R	0.543	0.98
263_A	266_I	0.540	0.98
181_A	185_K	0.540	0.98
17_G	23_D	0.540	0.98
12_T	33_L	0.538	0.98
179_E	183_W	0.537	0.98
16_Y	87_F	0.536	0.98
234_P	239_P	0.535	0.98
234_P	237_D	0.535	0.98
262_D	267_A	0.534	0.98
142_D	243_K	0.530	0.98
27_K	56_W	0.529	0.98
131_I	254_V	0.529	0.98
214_R	218_Y	0.529	0.98
40_V	54_G	0.528	0.98
88_L	101_A	0.528	0.98
43_R	46_P	0.528	0.98
33_L	42_T	0.527	0.98
67_F	155_G	0.526	0.98
81_R	110_G	0.526	0.98
222_R	225_G	0.525	0.98
138_T	244_P	0.523	0.98
154_F	206_I	0.521	0.98
260_D	267_A	0.520	0.98
176_K	182_V	0.520	0.98
162_L	202_V	0.520	0.98
5_T	9_K	0.519	0.98
15_V	24_E	0.517	0.98
187_A	190_V	0.516	0.98
201_T	260_D	0.516	0.98
232_T	238_G	0.516	0.98
222_R	228_A	0.514	0.98
164_E	223_D	0.513	0.98
175_G	178_G	0.512	0.98
62_V	144_V	0.512	0.98
68_W	71_S	0.511	0.98
58_A	153_G	0.510	0.98
261_A	269_L	0.510	0.98
58_A	69_N	0.508	0.97
14_Y	103_N	0.507	0.97
160_R	166_G	0.506	0.97
170_I	175_G	0.506	0.97
224_Y	230_N	0.505	0.97
25_L	53_R	0.505	0.97
58_A	151_Y	0.502	0.97
65_V	113_L	0.502	0.97
224_Y	227_F	0.501	0.97
156_I	206_I	0.500	0.97

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
3ep0A	1	0.3764	31.2	0.953	Contact Map
2kjpA	1	0.1476	18.1	0.958	Contact Map
2es7A	1	0.1033	15.4	0.96	Contact Map
4rz0A	2	0.3985	14.9	0.96	Contact Map
4i6xA	1	0.1328	11.7	0.962	Contact Map
3dalA	2	0.5978	10.8	0.962	Contact Map
1n3jA	2	0.428	10.8	0.962	Contact Map
2jt1A	1	0.1439	10.4	0.963	Contact Map
1v7wA	2	0.941	10	0.963	Contact Map
2qgvA	2	0.1181	9.4	0.963	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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