Minor_tail_Z - PFAM28P - GREMLIN Contacts

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Minor_tail_Z - Prophage minor tail protein Z (GPZ)

PFAM:	PF06763	Sequences: IKGLEQAIRNLGGLPKKAVPKALARALNRTAAKARTEAVREIRKEYNIKAKDVRKRLRIKKATASKLSATIRVSGGRLPLIKLGAAKVRKPKRGRKKKKGVSAVKKRGVVVKVGRKTIPGAFIATMKNGHRGVFRRTKGKKRLPIKELYGPSVPQMTEAVEEEVEEKAEERLPKELEHELNRQLRLVLKR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	190 (173)
Sequences:	1384 (1233)
Seq/√Len:	93.7
META:	0.793

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
39_V	54_R	4.207	1.00
31_A	69_A	3.153	1.00
175_E	179_E	3.123	1.00
80_L	83_L	3.103	1.00
33_K	171_R	2.991	1.00
43_R	50_A	2.816	1.00
175_E	178_H	2.705	1.00
126_M	130_H	2.409	1.00
28_N	62_A	2.345	1.00
126_M	132_G	2.309	1.00
171_R	174_K	2.302	1.00
40_R	50_A	2.241	1.00
36_T	40_R	2.233	1.00
41_E	44_K	2.169	1.00
83_L	86_A	2.060	1.00
25_R	179_E	1.982	1.00
132_G	147_E	1.978	1.00
39_V	43_R	1.973	1.00
33_K	37_E	1.944	1.00
39_V	50_A	1.921	1.00
29_R	32_A	1.912	1.00
125_T	131_R	1.882	1.00
171_R	175_E	1.875	1.00
49_K	52_D	1.827	1.00
50_A	54_R	1.802	1.00
84_G	88_V	1.762	1.00
120_G	135_R	1.687	1.00
33_K	36_T	1.674	1.00
27_L	69_A	1.674	1.00
101_V	104_V	1.643	1.00
130_H	147_E	1.637	1.00
62_A	67_L	1.633	1.00
150_G	153_V	1.604	1.00
179_E	182_R	1.603	1.00
105_K	108_G	1.533	1.00
60_K	66_K	1.503	1.00
24_A	64_A	1.494	1.00
32_A	36_T	1.492	1.00
88_V	91_P	1.477	1.00
29_R	179_E	1.460	1.00
29_R	175_E	1.455	1.00
26_A	30_T	1.429	0.99
35_R	54_R	1.397	0.99
29_R	33_K	1.386	0.99
174_K	178_H	1.376	0.99
78_L	83_L	1.351	0.99
172_L	176_L	1.339	0.99
14_L	17_K	1.338	0.99
17_K	21_K	1.335	0.99
33_K	175_E	1.329	0.99
34_A	168_A	1.300	0.99
25_R	183_Q	1.296	0.99
23_L	176_L	1.295	0.99
152_S	155_Q	1.292	0.99
79_P	82_K	1.290	0.99
111_V	114_G	1.288	0.99
84_G	87_K	1.272	0.99
43_R	47_N	1.267	0.99
24_A	62_A	1.259	0.99
101_V	105_K	1.254	0.99
147_E	150_G	1.231	0.98
178_H	182_R	1.223	0.98
43_R	53_V	1.215	0.98
32_A	35_R	1.211	0.98
135_R	146_K	1.201	0.98
118_I	121_A	1.182	0.98
138_K	144_P	1.174	0.98
124_A	132_G	1.172	0.98
175_E	182_R	1.157	0.98
108_G	113_V	1.140	0.97
116_K	120_G	1.139	0.97
134_F	145_I	1.134	0.97
167_K	171_R	1.127	0.97
179_E	183_Q	1.119	0.97
149_Y	153_V	1.104	0.97
152_S	156_M	1.096	0.97
35_R	59_I	1.095	0.97
42_I	157_T	1.095	0.97
124_A	143_L	1.088	0.97
43_R	54_R	1.065	0.96
37_E	40_R	1.062	0.96
33_K	167_K	1.058	0.96
48_I	53_V	1.049	0.96
149_Y	152_S	1.046	0.96
43_R	49_K	1.045	0.96
79_P	83_L	1.040	0.96
153_V	156_M	1.039	0.96
57_L	73_V	1.035	0.95
13_G	17_K	1.030	0.95
52_D	55_K	1.023	0.95
24_A	28_N	1.017	0.95
63_T	67_L	1.017	0.95
62_A	69_A	1.013	0.95
21_K	25_R	1.000	0.95
92_K	95_R	0.985	0.94
48_I	52_D	0.974	0.94
102_S	105_K	0.967	0.93
34_A	164_V	0.961	0.93
156_M	159_A	0.947	0.93
75_G	78_L	0.946	0.93
103_A	107_R	0.945	0.93
126_M	147_E	0.935	0.92
118_I	135_R	0.930	0.92
126_M	134_F	0.928	0.92
31_A	59_I	0.923	0.92
90_K	95_R	0.922	0.92
27_L	67_L	0.922	0.92
170_E	174_K	0.901	0.91
138_K	142_R	0.892	0.90
134_F	143_L	0.886	0.90
109_V	113_V	0.879	0.90
108_G	114_G	0.876	0.90
77_R	83_L	0.867	0.89
16_K	20_P	0.864	0.89
171_R	178_H	0.858	0.89
128_N	132_G	0.858	0.89
133_V	136_R	0.857	0.89
25_R	182_R	0.842	0.88
23_L	27_L	0.838	0.87
43_R	46_Y	0.837	0.87
41_E	163_E	0.836	0.87
100_G	104_V	0.836	0.87
145_I	150_G	0.830	0.87
167_K	170_E	0.828	0.87
161_E	165_E	0.826	0.87
89_R	92_K	0.824	0.87
90_K	93_R	0.824	0.87
38_A	160_V	0.821	0.86
91_P	94_G	0.820	0.86
177_E	181_N	0.820	0.86
25_R	29_R	0.808	0.85
32_A	61_K	0.789	0.84
126_M	131_R	0.786	0.84
101_V	106_K	0.783	0.84
104_V	107_R	0.783	0.84
90_K	94_G	0.781	0.84
150_G	156_M	0.781	0.84
37_E	167_K	0.779	0.83
146_K	149_Y	0.774	0.83
48_I	78_L	0.774	0.83
141_K	144_P	0.756	0.81
23_L	172_L	0.752	0.81
159_A	162_E	0.747	0.81
81_I	84_G	0.744	0.80
28_N	61_K	0.741	0.80
12_G	15_P	0.737	0.80
27_L	172_L	0.730	0.79
176_L	184_L	0.729	0.79
124_A	134_F	0.727	0.79
123_I	131_R	0.717	0.78
169_E	173_P	0.715	0.78
85_A	88_V	0.713	0.78
34_A	171_R	0.712	0.77
122_F	136_R	0.712	0.77
87_K	90_K	0.708	0.77
105_K	109_V	0.707	0.77
124_A	130_H	0.705	0.77
23_L	26_A	0.704	0.77
168_A	178_H	0.700	0.76
176_L	180_L	0.697	0.76
139_G	142_R	0.691	0.75
101_V	107_R	0.689	0.75
69_A	73_V	0.689	0.75
91_P	95_R	0.687	0.75
103_A	109_V	0.680	0.74
52_D	56_R	0.676	0.74
27_L	31_A	0.676	0.74
51_K	55_K	0.675	0.74
102_S	109_V	0.671	0.73
46_Y	156_M	0.668	0.73
123_I	133_V	0.665	0.73
23_L	67_L	0.662	0.72
61_K	67_L	0.662	0.72
122_F	129_G	0.659	0.72
39_V	57_L	0.658	0.72
139_G	144_P	0.658	0.72
37_E	171_R	0.651	0.71
124_A	128_N	0.650	0.71
17_K	20_P	0.649	0.71
135_R	148_L	0.648	0.71
88_V	92_K	0.648	0.71
62_A	66_K	0.648	0.71
86_A	90_K	0.645	0.70
172_L	179_E	0.645	0.70
157_T	160_V	0.644	0.70
12_G	17_K	0.635	0.69
46_Y	118_I	0.633	0.69
20_P	24_A	0.630	0.68
46_Y	52_D	0.626	0.68
78_L	81_I	0.625	0.68
117_T	120_G	0.623	0.68
87_K	92_K	0.622	0.67
31_A	34_A	0.620	0.67
108_G	115_R	0.620	0.67
89_R	93_R	0.618	0.67
62_A	71_I	0.617	0.67
60_K	63_T	0.617	0.67
95_R	99_K	0.616	0.67
168_A	172_L	0.613	0.66
106_K	109_V	0.610	0.66
86_A	92_K	0.607	0.66
36_T	43_R	0.604	0.65
91_P	96_K	0.599	0.65
100_G	103_A	0.598	0.64
125_T	128_N	0.597	0.64
147_E	151_P	0.597	0.64
21_K	64_A	0.597	0.64
178_H	181_N	0.596	0.64
101_V	133_V	0.595	0.64
87_K	94_G	0.592	0.64
38_A	164_V	0.592	0.64
37_E	41_E	0.586	0.63
103_A	106_K	0.584	0.63
168_A	174_K	0.582	0.62
80_L	84_G	0.581	0.62
71_I	78_L	0.580	0.62
69_A	75_G	0.578	0.62
26_A	179_E	0.572	0.61
165_E	169_E	0.571	0.61
42_I	53_V	0.571	0.61
172_L	183_Q	0.568	0.60
166_E	170_E	0.565	0.60
180_L	183_Q	0.563	0.60
19_V	23_L	0.563	0.60
95_R	100_G	0.561	0.60
16_K	22_A	0.549	0.58
15_P	18_A	0.547	0.58
134_F	147_E	0.545	0.57
76_G	83_L	0.544	0.57
129_G	153_V	0.543	0.57
132_G	145_I	0.541	0.57
147_E	152_S	0.540	0.57
136_R	144_P	0.539	0.57
86_A	89_R	0.532	0.56
36_T	178_H	0.530	0.55
36_T	50_A	0.529	0.55
158_E	162_E	0.529	0.55
11_L	20_P	0.528	0.55
150_G	154_P	0.527	0.55
67_L	71_I	0.525	0.55
50_A	53_V	0.524	0.54
9_R	13_G	0.521	0.54
75_G	83_L	0.520	0.54
15_P	20_P	0.520	0.54
172_L	182_R	0.519	0.54
163_E	167_K	0.516	0.53
156_M	160_V	0.514	0.53
21_K	165_E	0.514	0.53
100_G	105_K	0.512	0.53
140_K	144_P	0.511	0.53
23_L	135_R	0.510	0.52
157_T	161_E	0.508	0.52
75_G	154_P	0.505	0.52
30_T	168_A	0.505	0.52
165_E	172_L	0.504	0.52
136_R	139_G	0.504	0.52
177_E	184_L	0.503	0.52
89_R	94_G	0.502	0.51
151_P	156_M	0.502	0.51
177_E	180_L	0.500	0.51

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
3au4B	1	0.1316	7.6	0.935	Contact Map
2ikfA	1	0.2105	6.5	0.937	Contact Map
1ybxA	2	0.2421	5.6	0.939	Contact Map
2oeeA	2	0.2316	3.3	0.945	Contact Map
4uotA	3	0.0895	3.3	0.945	Contact Map
3f42A	4	0.2263	3.2	0.946	Contact Map
4layA	1	0.2895	2.7	0.948	Contact Map
1yc6A	8	0.2737	2.6	0.949	Contact Map
1y66A	3	0.0842	2.5	0.949	Contact Map
2yu1A	1	0.3105	2.4	0.949	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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