DUF2321 - PFAM28P - GREMLIN Contacts

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DUF2321 - Uncharacterized protein conserved in bacteria (DUF2321)

PFAM:	PF10083	Sequences: YYDTAQICLNGHVINSSAESYPEFNQKFCSKCGAKTITACPNCNAPIRGYYHVPGVIGFGGEYEPPAFCHNCGKPYPWTERKLEAARELADELDELSEEEREELKESLPDLVKDTPKTEVAAARFKKLLAKAGKEAAEALRDILVDVASEAAKKAI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	156 (154)
Sequences:	569 (539)
Seq/√Len:	43.4
META:	0.909

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
15_N	25_N	5.658	1.00
91_D	105_K	4.947	1.00
3_D	19_E	2.724	1.00
80_E	84_E	2.688	1.00
34_A	81_R	2.652	1.00
26_Q	30_S	2.622	1.00
26_Q	48_R	2.580	1.00
122_A	155_A	2.565	1.00
5_A	13_V	2.520	1.00
13_V	65_P	2.455	1.00
125_F	129_L	2.403	1.00
27_K	71_N	2.247	1.00
88_E	117_K	2.202	1.00
48_R	70_H	2.117	0.99
42_N	74_K	2.046	0.99
87_R	109_P	1.989	0.99
146_D	149_S	1.930	0.99
83_L	108_L	1.919	0.99
122_A	152_A	1.894	0.99
152_A	155_A	1.873	0.99
110_D	121_A	1.808	0.98
3_D	15_N	1.796	0.98
6_Q	36_T	1.789	0.98
92_E	124_R	1.788	0.98
7_I	65_P	1.729	0.98
90_A	101_R	1.705	0.98
9_L	37_I	1.581	0.96
101_R	104_L	1.552	0.96
102_E	106_E	1.535	0.95
7_I	13_V	1.527	0.95
150_E	153_K	1.517	0.95
92_E	107_S	1.506	0.95
141_R	146_D	1.488	0.95
90_A	93_L	1.487	0.95
100_E	131_K	1.446	0.94
37_I	41_P	1.443	0.94
42_N	80_E	1.437	0.93
4_T	19_E	1.431	0.93
15_N	19_E	1.420	0.93
27_K	35_K	1.417	0.93
135_E	138_E	1.401	0.93
138_E	142_D	1.380	0.92
5_A	63_Y	1.342	0.91
141_R	145_V	1.315	0.90
119_E	123_A	1.309	0.90
92_E	127_K	1.305	0.90
13_V	63_Y	1.298	0.89
63_Y	66_P	1.271	0.88
111_L	125_F	1.267	0.88
8_C	11_G	1.246	0.87
15_N	18_A	1.246	0.87
18_A	25_N	1.211	0.86
84_E	117_K	1.204	0.85
110_D	117_K	1.198	0.85
144_L	148_A	1.190	0.85
135_E	141_R	1.164	0.83
149_S	154_K	1.139	0.82
76_Y	123_A	1.134	0.82
86_A	120_V	1.131	0.82
86_A	89_L	1.129	0.82
81_R	85_A	1.127	0.81
69_C	78_W	1.126	0.81
8_C	12_H	1.115	0.81
85_A	104_L	1.102	0.80
129_L	132_A	1.101	0.80
6_Q	38_T	1.099	0.80
68_F	140_L	1.098	0.80
143_I	147_V	1.094	0.79
137_A	141_R	1.083	0.79
85_A	120_V	1.067	0.78
6_Q	26_Q	1.054	0.77
89_L	120_V	1.053	0.77
142_D	145_V	1.031	0.75
151_A	155_A	1.029	0.75
128_L	132_A	1.004	0.73
82_K	114_D	0.994	0.73
9_L	35_K	0.994	0.73
6_Q	14_I	0.963	0.70
47_I	63_Y	0.958	0.70
19_E	46_P	0.956	0.70
83_L	87_R	0.955	0.69
92_E	120_V	0.951	0.69
133_G	137_A	0.950	0.69
137_A	142_D	0.945	0.69
110_D	113_K	0.944	0.69
148_A	152_A	0.941	0.68
70_H	76_Y	0.919	0.66
43_C	78_W	0.917	0.66
9_L	34_A	0.914	0.66
114_D	149_S	0.894	0.64
90_A	128_L	0.890	0.64
16_S	63_Y	0.879	0.63
43_C	72_C	0.872	0.62
111_L	148_A	0.866	0.62
47_I	66_P	0.863	0.62
68_F	109_P	0.862	0.61
137_A	140_L	0.854	0.61
72_C	78_W	0.845	0.60
50_Y	53_V	0.841	0.60
10_N	116_P	0.836	0.59
135_E	142_D	0.836	0.59
118_T	152_A	0.835	0.59
7_I	63_Y	0.833	0.59
26_Q	70_H	0.830	0.58
18_A	38_T	0.829	0.58
139_A	143_I	0.825	0.58
131_K	140_L	0.815	0.57
43_C	69_C	0.809	0.57
114_D	152_A	0.806	0.56
47_I	76_Y	0.801	0.56
143_I	149_S	0.797	0.55
3_D	52_H	0.796	0.55
83_L	86_A	0.795	0.55
98_E	101_R	0.790	0.55
39_A	46_P	0.777	0.54
117_K	120_V	0.776	0.53
105_K	125_F	0.775	0.53
86_A	140_L	0.761	0.52
82_K	107_S	0.761	0.52
15_N	22_P	0.759	0.52
122_A	140_L	0.753	0.51
87_R	104_L	0.753	0.51
123_A	127_K	0.751	0.51
84_E	109_P	0.750	0.51
146_D	150_E	0.748	0.51
36_T	79_T	0.747	0.51
121_A	125_F	0.747	0.51
61_G	64_E	0.745	0.50
54_P	68_F	0.743	0.50
118_T	123_A	0.743	0.50
97_S	100_E	0.742	0.50
53_V	58_G	0.738	0.50
137_A	145_V	0.738	0.50
69_C	72_C	0.734	0.49
41_P	50_Y	0.732	0.49
39_A	59_F	0.725	0.49
14_I	23_E	0.723	0.48
9_L	14_I	0.713	0.47
4_T	22_P	0.710	0.47
114_D	118_T	0.708	0.47
116_P	121_A	0.699	0.46
119_E	122_A	0.696	0.46
32_C	47_I	0.696	0.46
3_D	22_P	0.696	0.46
124_R	127_K	0.695	0.46
3_D	6_Q	0.693	0.46
60_G	64_E	0.691	0.45
75_P	97_S	0.685	0.45
133_G	152_A	0.678	0.44
74_K	80_E	0.676	0.44
14_I	36_T	0.670	0.43
129_L	133_G	0.657	0.42
82_K	146_D	0.656	0.42
29_C	33_G	0.656	0.42
2_Y	48_R	0.649	0.41
146_D	151_A	0.645	0.41
125_F	148_A	0.638	0.40
7_I	16_S	0.635	0.40
41_P	77_P	0.635	0.40
26_Q	36_T	0.633	0.40
115_T	121_A	0.626	0.39
29_C	32_C	0.624	0.39
6_Q	27_K	0.621	0.39
79_T	111_L	0.619	0.39
65_P	80_E	0.615	0.38
53_V	57_I	0.614	0.38
90_A	111_L	0.611	0.38
87_R	115_T	0.610	0.38
40_C	43_C	0.608	0.38
111_L	121_A	0.606	0.37
96_L	128_L	0.604	0.37
45_A	55_G	0.600	0.37
19_E	45_A	0.599	0.37
51_Y	56_V	0.597	0.37
129_L	138_E	0.594	0.36
104_L	140_L	0.590	0.36
93_L	136_A	0.588	0.36
30_S	70_H	0.588	0.36
111_L	155_A	0.587	0.36
5_A	65_P	0.587	0.36
51_Y	147_V	0.585	0.36
40_C	72_C	0.582	0.35
88_E	118_T	0.582	0.35
88_E	152_A	0.579	0.35
40_C	78_W	0.578	0.35
104_L	125_F	0.577	0.35
5_A	8_C	0.575	0.35
6_Q	15_N	0.572	0.34
6_Q	22_P	0.569	0.34
139_A	142_D	0.562	0.34
45_A	70_H	0.560	0.33
3_D	25_N	0.559	0.33
43_C	73_G	0.557	0.33
71_N	96_L	0.555	0.33
129_L	137_A	0.555	0.33
2_Y	5_A	0.555	0.33
97_S	109_P	0.553	0.33
45_A	76_Y	0.551	0.33
10_N	81_R	0.549	0.33
9_L	41_P	0.544	0.32
103_E	106_E	0.544	0.32
51_Y	60_G	0.543	0.32
21_Y	24_F	0.542	0.32
44_N	148_A	0.541	0.32
128_L	136_A	0.538	0.32
42_N	106_E	0.535	0.31
54_P	59_F	0.534	0.31
134_K	146_D	0.533	0.31
32_C	40_C	0.532	0.31
44_N	53_V	0.530	0.31
56_V	59_F	0.528	0.31
86_A	121_A	0.526	0.31
147_V	151_A	0.526	0.31
110_D	124_R	0.525	0.31
136_A	139_A	0.523	0.30
18_A	26_Q	0.522	0.30
140_L	144_L	0.522	0.30
73_G	78_W	0.520	0.30
48_R	53_V	0.519	0.30
8_C	29_C	0.518	0.30
19_E	25_N	0.517	0.30
139_A	145_V	0.515	0.30
135_E	147_V	0.514	0.30
100_E	128_L	0.511	0.29
93_L	110_D	0.510	0.29
88_E	102_E	0.508	0.29
49_G	66_P	0.507	0.29
82_K	143_I	0.501	0.29
28_F	122_A	0.501	0.29
39_A	75_P	0.500	0.29
111_L	139_A	0.500	0.29

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
3j20Y	1	0.2821	76.8	0.919	Contact Map
2c2lA	1	0.4551	75.7	0.92	Contact Map
2dulA	2	0.8782	69.3	0.924	Contact Map
3o9xA	2	0.7564	65.3	0.926	Contact Map
1oahA	2	0.9744	61.9	0.927	Contact Map
4kblA	2	0.8526	61.6	0.927	Contact Map
3h0gL	1	0.25	54.6	0.93	Contact Map
3ga8A	1	0.3526	53.7	0.931	Contact Map
2f42A	2	0.4423	49.8	0.932	Contact Map
3ja82	1	0.8654	48.2	0.933	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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