GREMLIN Database
YMAD - Uncharacterized protein YmaD
UniProt: O31790 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 150 (135)
Sequences: 1028 (770)
Seq/√Len: 66.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
54_A96_I3.3631.00
95_K138_E3.2591.00
99_R140_Q2.8661.00
96_I133_I2.7681.00
54_A137_V2.6321.00
62_L116_A2.5821.00
121_K125_S2.5161.00
51_L82_G2.4081.00
16_R28_I2.3791.00
92_T131_R2.1701.00
112_D115_L2.1271.00
124_E139_L2.0841.00
64_A68_R1.9951.00
9_K79_E1.9751.00
75_D103_V1.9541.00
82_G96_I1.9011.00
51_L96_I1.8731.00
87_T92_T1.8441.00
65_M119_L1.7901.00
122_K125_S1.7261.00
5_H81_E1.7251.00
15_N18_D1.6320.99
106_H112_D1.6310.99
61_T65_M1.6050.99
87_T90_V1.5860.99
66_M71_L1.5790.99
104_L112_D1.5750.99
113_V117_H1.5610.99
23_E26_N1.5220.99
83_I97_I1.5210.99
50_L135_G1.5020.99
19_V22_I1.4930.99
65_M126_S1.4920.99
14_G74_E1.4840.99
22_I26_N1.4380.98
53_A61_T1.4320.98
44_T48_E1.4000.98
54_A133_I1.3970.98
97_I140_Q1.3950.98
58_Y120_C1.3830.98
107_D111_D1.3550.97
79_E101_S1.3340.97
90_V131_R1.3290.97
77_Q101_S1.3250.97
8_L80_S1.3140.97
104_L113_V1.3090.97
71_L104_L1.2980.97
64_A67_E1.2830.96
97_I138_E1.2660.96
10_A59_I1.2480.96
18_D21_T1.2450.96
74_E105_K1.2160.95
83_I95_K1.2050.95
69_S115_L1.1550.93
85_N94_K1.1320.93
69_S122_K1.1270.93
11_N77_Q1.1210.92
81_E99_R1.1190.92
115_L118_K1.1070.92
48_E56_T1.0970.92
31_I56_T1.0940.91
54_A128_M1.0810.91
122_K126_S1.0650.90
40_P61_T1.0540.90
119_L123_A1.0520.90
6_F93_Y1.0370.89
50_L133_I1.0260.89
7_Y81_E1.0260.89
8_L44_T1.0180.88
58_Y78_M1.0150.88
32_S48_E1.0140.88
5_H83_I1.0130.88
6_F84_V1.0100.88
65_M69_S1.0030.87
61_T68_R0.9850.87
82_G93_Y0.9740.86
114_A117_H0.9580.85
10_A55_A0.9560.85
9_K77_Q0.9490.84
30_S43_G0.9310.83
24_S28_I0.9120.82
90_V126_S0.8920.81
27_L30_S0.8860.80
58_Y130_S0.8850.80
66_M131_R0.8700.79
34_P37_M0.8680.79
44_T56_T0.8660.79
40_P43_G0.8640.78
106_H111_D0.8610.78
11_N75_D0.8610.78
59_I78_M0.8610.78
22_I28_I0.8560.78
44_T52_G0.8550.78
39_G45_N0.8530.77
18_D29_T0.8430.77
101_S142_E0.8120.74
53_A86_V0.8090.74
56_T59_I0.8090.74
50_L137_V0.8050.73
92_T134_Q0.8040.73
104_L116_A0.8010.73
73_K76_L0.7980.73
50_L93_Y0.7980.73
14_G20_G0.7840.71
117_H121_K0.7830.71
50_L54_A0.7590.69
101_S121_K0.7580.69
7_Y79_E0.7570.69
57_C127_C0.7560.69
100_P141_L0.7540.68
107_D112_D0.7540.68
50_L129_I0.7500.68
25_G28_I0.7480.68
31_I35_K0.7470.68
114_A118_K0.7290.66
50_L96_I0.7220.65
32_S45_N0.7220.65
95_K136_N0.7170.64
19_V26_N0.7140.64
21_T27_L0.7090.64
77_Q103_V0.7090.64
67_E119_L0.7090.64
21_T26_N0.7060.63
129_I137_V0.7060.63
63_A76_L0.7000.63
24_S64_A0.6980.62
46_P57_C0.6970.62
8_L59_I0.6930.62
129_I133_I0.6920.62
78_M98_H0.6800.60
34_P39_G0.6770.60
74_E103_V0.6730.60
63_A73_K0.6650.59
27_L40_P0.6510.57
76_L120_C0.6500.57
19_V23_E0.6460.56
6_F34_P0.6460.56
61_T64_A0.6420.56
61_T93_Y0.6350.55
81_E95_K0.6330.55
105_K111_D0.6330.55
92_T136_N0.6300.55
65_M122_K0.6280.54
12_W63_A0.6270.54
46_P127_C0.6250.54
83_I138_E0.6250.54
50_L53_A0.6190.53
35_K41_G0.6170.53
33_I37_M0.6150.53
104_L111_D0.6130.53
71_L111_D0.6120.52
75_D102_V0.6120.52
80_S98_H0.6100.52
61_T84_V0.6070.52
62_L66_M0.5950.50
86_V90_V0.5910.50
71_L103_V0.5880.50
47_D84_V0.5860.49
30_S49_M0.5850.49
78_M120_C0.5830.49
33_I60_I0.5820.49
35_K48_E0.5800.49
34_P64_A0.5770.48
83_I94_K0.5760.48
14_G34_P0.5740.48
93_Y135_G0.5730.48
130_S139_L0.5720.48
81_E138_E0.5710.48
103_V142_E0.5690.47
33_I63_A0.5670.47
12_W100_P0.5650.47
71_L115_L0.5610.46
73_K78_M0.5600.46
66_M73_K0.5600.46
13_P103_V0.5580.46
6_F33_I0.5560.46
59_I76_L0.5540.46
111_D116_A0.5520.45
113_V116_A0.5480.45
72_E105_K0.5470.45
21_T24_S0.5430.44
22_I68_R0.5430.44
106_H113_V0.5380.44
72_E83_I0.5340.43
34_P128_M0.5310.43
45_N51_L0.5300.43
33_I39_G0.5300.43
48_E89_G0.5280.43
37_M84_V0.5270.42
69_S118_K0.5260.42
117_H142_E0.5240.42
7_Y99_R0.5180.41
79_E83_I0.5140.41
6_F43_G0.5130.41
34_P38_D0.5120.41
103_V106_H0.5110.41
12_W73_K0.5090.40
20_G24_S0.5060.40
47_D98_H0.5030.40
26_N30_S0.5010.39
7_Y142_E0.5010.39
15_N21_T0.5000.39
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

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  
2d7vA 2 0.9133 100 0.483 Contact Map
2onfA 2 0.9267 100 0.489 Contact Map
1nyeA 5 0.9333 99.9 0.5 Contact Map
2oplA 2 0.94 99.9 0.508 Contact Map
1qwiA 2 0.92 99.9 0.509 Contact Map
4nozA 2 0.9133 99.9 0.512 Contact Map
1ukkA 2 0.9133 99.9 0.513 Contact Map
1n2fA 2 0.92 99.9 0.516 Contact Map
3eerA 2 0.9133 99.9 0.518 Contact Map
1uspA 2 0.9067 99.9 0.518 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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