Cyto_heme_lyase - PFAM28P - GREMLIN Contacts

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Cyto_heme_lyase - Cytochrome c/c1 heme lyase

PFAM:	PF01265	Sequences: MGWFWADSPPAAAPAPASASSSASPPSGCPMHHKTRSAWLSQASAPPAPPAAASPPSACPVPHDASPPASAASSTLSKLNPLNYMPPSLSQTPAPDQPFPLPTEREESSIPRGDSEGNWEYPSPQQFYNAMLRKGWDDTPEEDMESMVPIHNFLNEGAWQEILKWEALHAKGLYKGWEICRRGECGCAEELAREEGPKLVRFQGRPKELSPKARIRSWLGYLYPSKFGTEPPFDRHDWIVDRCTPGGGGKEVRYVIDYYSGPPEPTGEPVFYLDVRPALDSPEAVKDRMKRW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	292 (241)
Sequences:	509 (393)
Seq/√Len:	25.3
META:	0.108

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
205_R	208_E	3.323	1.00
59_C	63_H	3.080	1.00
124_P	145_E	2.966	1.00
26_P	32_H	2.782	0.99
105_R	110_I	2.722	0.99
253_R	280_D	2.707	0.99
101_L	105_R	2.701	0.99
201_R	251_E	2.623	0.99
286_K	290_K	2.605	0.99
125_Q	129_N	2.509	0.99
253_R	278_A	2.493	0.99
158_A	273_L	2.388	0.98
101_L	110_I	2.323	0.98
25_P	31_M	2.291	0.98
36_R	39_W	2.212	0.97
241_D	249_G	2.146	0.97
169_H	287_D	2.136	0.97
36_R	40_L	2.084	0.96
280_D	284_A	2.079	0.96
105_R	112_R	2.070	0.96
26_P	31_M	2.065	0.96
39_W	42_Q	2.046	0.96
215_I	218_W	2.018	0.95
185_C	243_C	2.005	0.95
105_R	111_P	1.947	0.94
153_F	271_F	1.947	0.94
101_L	112_R	1.898	0.93
147_M	154_L	1.889	0.93
34_K	37_S	1.875	0.93
212_K	230_E	1.871	0.93
209_L	231_P	1.860	0.93
90_S	93_P	1.852	0.93
139_T	212_K	1.834	0.92
97_Q	125_Q	1.824	0.92
217_S	231_P	1.821	0.92
158_A	258_Y	1.796	0.91
127_F	150_I	1.755	0.90
58_A	61_V	1.685	0.89
147_M	158_A	1.683	0.88
58_A	63_H	1.630	0.87
127_F	157_G	1.626	0.87
44_S	47_P	1.599	0.86
62_P	65_A	1.592	0.85
265_P	289_M	1.590	0.85
28_G	32_H	1.575	0.85
161_E	164_K	1.574	0.85
117_G	198_K	1.555	0.84
261_G	272_Y	1.555	0.84
113_G	200_V	1.533	0.83
281_S	284_A	1.521	0.83
25_P	32_H	1.489	0.81
43_A	53_A	1.487	0.81
106_E	112_R	1.482	0.81
97_Q	129_N	1.477	0.81
198_K	241_D	1.464	0.80
101_L	111_P	1.441	0.79
35_T	38_A	1.439	0.79
48_A	51_A	1.432	0.79
93_P	100_P	1.430	0.79
85_M	258_Y	1.419	0.78
135_G	161_E	1.409	0.78
205_R	253_R	1.403	0.77
59_C	62_P	1.400	0.77
108_S	111_P	1.398	0.77
243_C	249_G	1.394	0.77
105_R	108_S	1.393	0.77
43_A	46_P	1.392	0.77
47_P	50_P	1.387	0.76
35_T	39_W	1.375	0.76
153_F	262_P	1.369	0.75
83_N	125_Q	1.367	0.75
205_R	280_D	1.366	0.75
107_E	118_N	1.365	0.75
104_E	107_E	1.353	0.75
127_F	143_D	1.350	0.74
46_P	50_P	1.344	0.74
83_N	97_Q	1.331	0.73
80_N	83_N	1.321	0.73
106_E	109_S	1.297	0.71
128_Y	270_V	1.290	0.71
25_P	33_H	1.273	0.70
120_E	154_L	1.256	0.69
143_D	241_D	1.244	0.68
196_G	243_C	1.243	0.68
149_P	258_Y	1.233	0.67
262_P	271_F	1.212	0.66
28_G	31_M	1.211	0.66
148_V	206_P	1.204	0.65
168_L	275_V	1.194	0.65
204_G	212_K	1.192	0.65
209_L	217_S	1.189	0.64
47_P	52_A	1.183	0.64
154_L	262_P	1.182	0.64
109_S	118_N	1.164	0.63
263_P	269_P	1.152	0.62
150_I	239_I	1.137	0.61
118_N	162_I	1.135	0.61
206_P	253_R	1.125	0.60
158_A	271_F	1.123	0.60
187_C	243_C	1.123	0.60
44_S	48_A	1.120	0.60
109_S	215_I	1.117	0.60
47_P	51_A	1.113	0.59
249_G	252_V	1.104	0.59
27_S	33_H	1.104	0.59
90_S	94_A	1.101	0.58
139_T	287_D	1.097	0.58
131_M	144_M	1.097	0.58
201_R	239_I	1.096	0.58
46_P	54_S	1.091	0.58
106_E	141_E	1.089	0.58
212_K	274_D	1.081	0.57
37_S	40_L	1.070	0.56
131_M	162_I	1.070	0.56
49_P	53_A	1.048	0.55
154_L	258_Y	1.046	0.54
279_L	289_M	1.043	0.54
27_S	32_H	1.033	0.54
58_A	239_I	1.016	0.52
85_M	97_Q	1.016	0.52
249_G	281_S	1.014	0.52
218_W	221_Y	1.009	0.52
208_E	280_D	1.006	0.52
89_L	126_Q	1.005	0.51
161_E	214_R	1.001	0.51
106_E	162_I	1.000	0.51
101_L	108_S	0.997	0.51
37_S	42_Q	0.993	0.51
132_L	184_E	0.992	0.51
263_P	267_G	0.992	0.51
154_L	271_F	0.991	0.50
139_T	147_M	0.991	0.50
124_P	147_M	0.988	0.50
107_E	112_R	0.985	0.50
127_F	144_M	0.985	0.50
146_S	284_A	0.984	0.50
208_E	253_R	0.981	0.50
35_T	53_A	0.974	0.49
46_P	49_P	0.973	0.49
206_P	278_A	0.972	0.49
153_F	261_G	0.970	0.49
187_C	275_V	0.968	0.49
211_P	279_L	0.963	0.48
108_S	112_R	0.963	0.48
91_Q	97_Q	0.956	0.48
206_P	280_D	0.951	0.48
205_R	282_P	0.939	0.47
91_Q	94_A	0.939	0.47
279_L	286_K	0.937	0.47
51_A	54_S	0.933	0.46
37_S	43_A	0.932	0.46
209_L	214_R	0.932	0.46
264_E	267_G	0.929	0.46
126_Q	269_P	0.929	0.46
45_A	48_A	0.926	0.46
126_Q	140_P	0.919	0.45
80_N	125_Q	0.919	0.45
150_I	157_G	0.916	0.45
187_C	196_G	0.912	0.45
18_S	21_S	0.898	0.44
205_R	278_A	0.891	0.43
140_P	144_M	0.888	0.43
201_R	280_D	0.880	0.42
136_W	260_S	0.879	0.42
144_M	241_D	0.873	0.42
163_L	230_E	0.868	0.42
218_W	275_V	0.858	0.41
136_W	164_K	0.858	0.41
107_E	198_K	0.855	0.41
16_P	19_A	0.855	0.41
56_P	61_V	0.855	0.41
35_T	40_L	0.847	0.40
38_A	41_S	0.844	0.40
164_K	214_R	0.844	0.40
52_A	56_P	0.843	0.40
31_M	34_K	0.842	0.40
210_S	255_V	0.842	0.40
187_C	249_G	0.838	0.39
128_Y	154_L	0.829	0.39
126_Q	143_D	0.826	0.39
221_Y	263_P	0.823	0.38
215_I	221_Y	0.821	0.38
18_S	22_S	0.821	0.38
256_I	273_L	0.820	0.38
200_V	251_E	0.814	0.38
35_T	255_V	0.802	0.37
49_P	52_A	0.801	0.37
147_M	153_F	0.799	0.37
127_F	136_W	0.791	0.36
160_Q	163_L	0.790	0.36
144_M	147_M	0.784	0.36
109_S	126_Q	0.776	0.35
40_L	43_A	0.768	0.35
213_A	235_R	0.768	0.35
68_P	71_A	0.768	0.35
101_L	109_S	0.765	0.34
258_Y	262_P	0.764	0.34
124_P	148_V	0.763	0.34
59_C	65_A	0.759	0.34
165_W	275_V	0.758	0.34
28_G	33_H	0.757	0.34
144_M	153_F	0.756	0.34
41_S	45_A	0.755	0.34
27_S	31_M	0.751	0.34
278_A	284_A	0.749	0.33
131_M	143_D	0.743	0.33
113_G	197_P	0.740	0.33
126_Q	154_L	0.740	0.33
146_S	150_I	0.740	0.33
164_K	197_P	0.738	0.33
126_Q	203_Q	0.737	0.33
109_S	115_S	0.735	0.33
279_L	284_A	0.731	0.32
50_P	53_A	0.730	0.32
105_R	109_S	0.722	0.32
276_R	288_R	0.719	0.32
198_K	219_L	0.718	0.31
221_Y	243_C	0.714	0.31
203_Q	239_I	0.712	0.31
48_A	54_S	0.712	0.31
34_K	38_A	0.711	0.31
136_W	150_I	0.710	0.31
79_L	201_R	0.708	0.31
21_S	25_P	0.705	0.31
109_S	240_V	0.705	0.31
75_T	88_S	0.704	0.31
16_P	20_S	0.704	0.31
57_S	62_P	0.703	0.31
97_Q	206_P	0.702	0.30
117_G	217_S	0.701	0.30
83_N	91_Q	0.700	0.30
136_W	209_L	0.698	0.30
23_A	53_A	0.697	0.30
89_L	93_P	0.694	0.30
39_W	43_A	0.694	0.30
147_M	161_E	0.692	0.30
147_M	270_V	0.691	0.30
20_S	23_A	0.687	0.30
91_Q	96_D	0.686	0.29
80_N	85_M	0.684	0.29
162_I	278_A	0.681	0.29
153_F	269_P	0.681	0.29
69_A	73_S	0.679	0.29
116_E	255_V	0.676	0.29
168_L	187_C	0.676	0.29
125_Q	206_P	0.676	0.29
170_A	185_C	0.676	0.29
158_A	221_Y	0.672	0.29
74_S	77_S	0.669	0.28
85_M	253_R	0.664	0.28
127_F	243_C	0.663	0.28
144_M	154_L	0.659	0.28
101_L	106_E	0.659	0.28
136_W	231_P	0.658	0.28
117_G	158_A	0.656	0.28
153_F	158_A	0.656	0.28
208_E	278_A	0.654	0.28
135_G	138_D	0.649	0.27
153_F	221_Y	0.647	0.27
25_P	28_G	0.645	0.27
135_G	210_S	0.641	0.27
115_S	118_N	0.639	0.27
72_A	75_T	0.635	0.26
154_L	260_S	0.635	0.26
145_E	196_G	0.633	0.26
164_K	167_A	0.632	0.26
83_N	86_P	0.630	0.26
150_I	262_P	0.630	0.26
66_S	69_A	0.630	0.26
115_S	275_V	0.630	0.26
54_S	57_S	0.627	0.26
162_I	196_G	0.627	0.26
154_L	216_R	0.627	0.26
23_A	68_P	0.624	0.26
80_N	97_Q	0.622	0.26
161_E	261_G	0.620	0.26
20_S	24_S	0.620	0.26
132_L	240_V	0.618	0.26
215_I	262_P	0.618	0.26
81_P	258_Y	0.611	0.25
47_P	54_S	0.610	0.25
158_A	161_E	0.610	0.25
207_K	241_D	0.610	0.25
19_A	23_A	0.609	0.25
212_K	270_V	0.606	0.25
251_E	285_V	0.605	0.25
203_Q	210_S	0.603	0.25
19_A	22_S	0.603	0.25
89_L	167_A	0.598	0.24
58_A	240_V	0.598	0.24
120_E	153_F	0.598	0.24
70_S	73_S	0.596	0.24
201_R	253_R	0.596	0.24
282_P	286_K	0.596	0.24
52_A	57_S	0.596	0.24
48_A	53_A	0.595	0.24
141_E	209_L	0.592	0.24
38_A	75_T	0.590	0.24
139_T	270_V	0.589	0.24
49_P	55_P	0.587	0.24
73_S	76_L	0.580	0.23
149_P	284_A	0.580	0.23
243_C	252_V	0.579	0.23
107_E	201_R	0.578	0.23
124_P	196_G	0.578	0.23
90_S	260_S	0.577	0.23
131_M	216_R	0.576	0.23
65_A	68_P	0.576	0.23
126_Q	241_D	0.573	0.23
35_T	41_S	0.570	0.23
129_N	206_P	0.568	0.23
77_S	210_S	0.567	0.23
16_P	52_A	0.566	0.23
21_S	24_S	0.564	0.23
127_F	146_S	0.564	0.23
83_N	129_N	0.563	0.23
187_C	279_L	0.561	0.23
20_S	34_K	0.561	0.23
137_D	143_D	0.561	0.23
143_D	146_S	0.560	0.22
120_E	147_M	0.558	0.22
137_D	264_E	0.558	0.22
284_A	287_D	0.554	0.22
186_G	289_M	0.553	0.22
21_S	66_S	0.553	0.22
185_C	197_P	0.552	0.22
148_V	271_F	0.546	0.22
102_P	110_I	0.545	0.22
139_T	144_M	0.545	0.22
80_N	126_Q	0.545	0.22
214_R	221_Y	0.545	0.22
16_P	21_S	0.544	0.22
165_W	273_L	0.543	0.22
120_E	144_M	0.540	0.21
91_Q	184_E	0.539	0.21
127_F	148_V	0.538	0.21
54_S	100_P	0.534	0.21
200_V	241_D	0.532	0.21
116_E	184_E	0.531	0.21
250_K	283_E	0.528	0.21
38_A	43_A	0.527	0.21
125_Q	253_R	0.526	0.21
48_A	69_A	0.524	0.21
31_M	258_Y	0.524	0.21
185_C	264_E	0.522	0.21
239_I	282_P	0.520	0.20
53_A	64_D	0.519	0.20
32_H	36_R	0.519	0.20
34_K	42_Q	0.519	0.20
143_D	210_S	0.514	0.20
55_P	61_V	0.514	0.20
240_V	267_G	0.513	0.20
124_P	270_V	0.513	0.20
127_F	216_R	0.512	0.20
204_G	208_E	0.511	0.20
23_A	52_A	0.510	0.20
35_T	70_S	0.509	0.20
127_F	153_F	0.508	0.20
216_R	272_Y	0.507	0.20
49_P	65_A	0.504	0.20
69_A	95_P	0.504	0.20
149_P	154_L	0.500	0.20

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
3tr7A	1	0.2945	24.4	0.974	Contact Map
3fciA	1	0.3219	11.8	0.978	Contact Map
3gwlA	2	0.3219	10	0.978	Contact Map
3uf7A	1	0.2979	8.8	0.979	Contact Map
3u5sA	2	0.2842	7.1	0.98	Contact Map
2hj3A	4	0.3048	6.6	0.98	Contact Map
3zoqA	1	0.3185	5.6	0.981	Contact Map
3wdfA	1	0.3048	5.3	0.981	Contact Map
3drxA	3	0.2945	5	0.981	Contact Map
1tw0A	2	0.4452	4.4	0.982	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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