DCD - SULSO - GREMLIN Contacts

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DCD - Probable deoxycytidine triphosphate deaminase

UniProt:	Q980T7	Sequences: MILSDRDLKYYLEKSWIKIQPLREDTIRENGVDLRVGNEIARFKKTDKIFDPDNPDPSFFQTEKGEEFIIQPYEHVLLTTEEYIELNNDVMAFVNLRSTFARLGLFIPPTIVDAGFKGQVTIEVVGSSFPVKLKRSTRFIHLIFARTLTPVEYPYQGKYQGQKGVTLPKFNSQISSFYYQHQSI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	184 (168)
Sequences:	1898 (871)
Seq/√Len:	67.2

ECOLI - DCD
HALSA - DCD DUT
SULSO - DCD Q97UQ2

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_E	117_K	5.423	1.00
10_Y	14_K	3.741	1.00
35_R	81_E	3.699	1.00
34_L	140_I	3.506	1.00
112_V	120_V	3.216	1.00
89_D	146_R	3.147	1.00
19_I	32_V	2.740	1.00
81_E	136_S	2.503	1.00
92_A	144_F	2.375	1.00
30_N	114_A	2.261	1.00
11_Y	16_W	2.246	1.00
98_S	102_R	2.241	1.00
9_K	24_E	2.126	1.00
93_F	145_A	2.089	1.00
105_L	131_V	2.087	1.00
37_G	79_T	2.065	1.00
22_L	32_V	2.054	1.00
26_T	35_R	2.000	1.00
86_L	92_A	1.930	1.00
51_D	134_K	1.893	1.00
7_D	10_Y	1.845	1.00
7_D	148_L	1.821	1.00
83_Y	117_K	1.750	1.00
79_T	119_Q	1.732	1.00
7_D	149_T	1.723	1.00
9_K	152_E	1.680	0.99
12_L	22_L	1.667	0.99
3_L	7_D	1.655	0.99
117_K	161_G	1.622	0.99
71_Q	74_E	1.615	0.99
34_L	142_L	1.597	0.99
4_S	7_D	1.592	0.99
36_V	133_L	1.565	0.99
11_Y	90_V	1.563	0.99
102_R	141_H	1.525	0.99
37_G	136_S	1.520	0.99
112_V	142_L	1.483	0.99
22_L	27_I	1.463	0.98
86_L	90_V	1.444	0.98
34_L	84_I	1.420	0.98
81_E	135_R	1.420	0.98
53_D	134_K	1.386	0.98
67_E	132_K	1.376	0.98
8_L	32_V	1.361	0.98
28_R	141_H	1.314	0.97
11_Y	87_N	1.311	0.97
2_I	145_A	1.274	0.96
98_S	141_H	1.272	0.96
100_F	137_T	1.271	0.96
69_I	132_K	1.251	0.96
15_S	18_K	1.232	0.96
33_D	97_R	1.231	0.96
27_I	32_V	1.218	0.95
43_F	77_L	1.217	0.95
71_Q	130_P	1.198	0.95
23_R	122_I	1.193	0.95
106_F	125_V	1.190	0.95
11_Y	15_S	1.186	0.95
7_D	11_Y	1.184	0.94
113_D	159_Y	1.176	0.94
96_L	101_A	1.176	0.94
20_Q	83_Y	1.169	0.94
88_N	154_P	1.152	0.94
116_F	162_Q	1.146	0.93
67_E	134_K	1.140	0.93
63_E	67_E	1.133	0.93
87_N	90_V	1.117	0.93
80_T	122_I	1.112	0.92
93_F	111_I	1.106	0.92
97_R	138_R	1.105	0.92
10_Y	18_K	1.100	0.92
78_L	124_V	1.097	0.92
123_E	162_Q	1.095	0.92
99_T	168_P	1.094	0.92
113_D	116_F	1.088	0.92
44_K	58_S	1.087	0.91
78_L	96_L	1.066	0.91
23_R	26_T	1.062	0.91
11_Y	89_D	1.054	0.90
6_R	152_E	1.042	0.90
99_T	141_H	1.034	0.89
119_Q	164_G	1.027	0.89
4_S	149_T	1.014	0.88
105_L	126_G	1.013	0.88
92_A	112_V	1.000	0.88
39_E	79_T	0.989	0.87
92_A	142_L	0.989	0.87
109_P	130_P	0.983	0.87
57_P	60_F	0.971	0.86
18_K	85_E	0.965	0.86
122_I	139_F	0.962	0.86
28_R	33_D	0.949	0.85
23_R	35_R	0.936	0.84
89_D	150_P	0.930	0.84
4_S	147_T	0.925	0.83
3_L	146_R	0.922	0.83
36_V	78_L	0.919	0.83
111_I	116_F	0.917	0.83
108_P	123_E	0.914	0.83
101_A	123_E	0.908	0.82
76_V	126_G	0.908	0.82
72_P	105_L	0.902	0.82
2_I	143_I	0.877	0.80
77_L	105_L	0.876	0.80
97_R	102_R	0.876	0.80
115_G	155_Y	0.875	0.80
109_P	124_V	0.873	0.80
97_R	141_H	0.870	0.79
107_I	140_I	0.863	0.79
113_D	118_G	0.863	0.79
26_T	138_R	0.858	0.78
78_L	139_F	0.841	0.77
96_L	108_P	0.838	0.77
9_K	13_E	0.835	0.76
98_S	101_A	0.829	0.76
147_T	151_V	0.829	0.76
33_D	143_I	0.827	0.76
151_V	154_P	0.827	0.76
8_L	16_W	0.821	0.75
2_I	91_M	0.816	0.75
34_L	80_T	0.813	0.75
95_N	116_F	0.807	0.74
18_K	83_Y	0.806	0.74
42_R	104_G	0.805	0.74
10_Y	24_E	0.802	0.74
34_L	139_F	0.801	0.73
39_E	61_Q	0.798	0.73
77_L	121_T	0.796	0.73
16_W	89_D	0.795	0.73
64_K	67_E	0.795	0.73
96_L	105_L	0.791	0.72
75_H	125_V	0.787	0.72
110_T	113_D	0.771	0.71
40_I	68_F	0.761	0.70
31_G	111_I	0.759	0.69
74_E	138_R	0.759	0.69
95_N	108_P	0.756	0.69
72_P	130_P	0.755	0.69
70_I	124_V	0.755	0.69
10_Y	13_E	0.753	0.69
80_T	120_V	0.740	0.67
105_L	111_I	0.740	0.67
124_V	133_L	0.739	0.67
50_F	54_N	0.736	0.67
8_L	144_F	0.733	0.67
166_T	169_K	0.730	0.66
80_T	101_A	0.726	0.66
66_E	69_I	0.724	0.66
80_T	139_F	0.716	0.65
49_I	69_I	0.714	0.65
86_L	144_F	0.713	0.65
116_F	120_V	0.703	0.63
87_N	118_G	0.700	0.63
110_T	116_F	0.699	0.63
160_Q	164_G	0.681	0.61
88_N	115_G	0.678	0.61
143_I	147_T	0.677	0.61
124_V	165_V	0.674	0.60
2_I	48_K	0.672	0.60
11_Y	17_I	0.669	0.60
19_I	22_L	0.652	0.58
28_R	99_T	0.650	0.57
93_F	143_I	0.646	0.57
96_L	162_Q	0.640	0.56
40_I	67_E	0.638	0.56
21_P	77_L	0.633	0.55
84_I	142_L	0.632	0.55
11_Y	144_F	0.632	0.55
20_Q	23_R	0.630	0.55
80_T	121_T	0.629	0.55
9_K	27_I	0.627	0.55
9_K	14_K	0.627	0.55
93_F	110_T	0.625	0.54
8_L	19_I	0.623	0.54
95_N	123_E	0.621	0.54
6_R	149_T	0.620	0.54
30_N	126_G	0.620	0.54
14_K	18_K	0.615	0.53
77_L	123_E	0.613	0.53
95_N	143_I	0.612	0.53
6_R	37_G	0.609	0.53
5_D	8_L	0.608	0.52
122_I	140_I	0.608	0.52
4_S	148_L	0.607	0.52
62_T	65_G	0.606	0.52
36_V	76_V	0.604	0.52
77_L	96_L	0.601	0.52
91_M	111_I	0.596	0.51
95_N	101_A	0.596	0.51
21_P	82_E	0.593	0.51
91_M	110_T	0.593	0.51
105_L	137_T	0.592	0.51
91_M	113_D	0.592	0.51
91_M	143_I	0.592	0.51
22_L	26_T	0.591	0.50
103_L	137_T	0.587	0.50
44_K	48_K	0.586	0.50
97_R	100_F	0.585	0.50
41_A	126_G	0.584	0.50
34_L	118_G	0.581	0.49
156_Q	163_K	0.580	0.49
69_I	134_K	0.580	0.49
70_I	140_I	0.580	0.49
103_L	168_P	0.579	0.49
13_E	24_E	0.579	0.49
17_I	87_N	0.578	0.49
69_I	123_E	0.578	0.49
20_Q	24_E	0.577	0.49
73_Y	126_G	0.577	0.49
97_R	158_K	0.575	0.49
44_K	60_F	0.571	0.48
104_G	126_G	0.570	0.48
94_V	120_V	0.569	0.48
31_G	157_G	0.568	0.48
98_S	123_E	0.568	0.48
78_L	123_E	0.566	0.47
76_V	120_V	0.560	0.47
94_V	112_V	0.558	0.47
54_N	163_K	0.556	0.46
5_D	9_K	0.556	0.46
31_G	101_A	0.554	0.46
40_I	78_L	0.554	0.46
12_L	32_V	0.554	0.46
6_R	10_Y	0.552	0.46
98_S	110_T	0.552	0.46
108_P	111_I	0.549	0.45
10_Y	47_D	0.542	0.45
41_A	167_L	0.542	0.45
42_R	59_F	0.541	0.45
36_V	98_S	0.540	0.44
101_A	141_H	0.533	0.44
15_S	152_E	0.532	0.43
130_P	140_I	0.531	0.43
68_F	76_V	0.526	0.43
2_I	114_A	0.525	0.43
13_E	38_N	0.525	0.43
119_Q	163_K	0.522	0.42
136_S	163_K	0.522	0.42
80_T	96_L	0.520	0.42
105_L	124_V	0.519	0.42
138_R	143_I	0.519	0.42
101_A	108_P	0.516	0.42
28_R	80_T	0.515	0.42
36_V	139_F	0.513	0.41
10_Y	169_K	0.512	0.41
68_F	71_Q	0.508	0.41
34_L	92_A	0.507	0.41
51_D	113_D	0.507	0.41
92_A	120_V	0.506	0.40
30_N	134_K	0.506	0.40
39_E	164_G	0.503	0.40
64_K	133_L	0.500	0.40

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
1xs1A	5	0.9402	100	0.224	Contact Map
2qxxA	3	0.962	100	0.23	Contact Map
4xjcA	3	0.9457	100	0.237	Contact Map
1pkhA	5	0.8261	100	0.242	Contact Map
4dhkA	5	0.8261	100	0.261	Contact Map
3km3A	4	0.7935	100	0.263	Contact Map
2yzjA	3	0.8587	100	0.275	Contact Map
2r9qA	4	0.8261	100	0.321	Contact Map
3lqwA	3	0.6413	99.9	0.61	Contact Map
1dunA	3	0.6467	99.8	0.625	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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