GREMLIN Database
YCCU - Uncharacterized protein YccU
UniProt: P75874 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13723
Length: 137 (127)
Sequences: 1842 (1250)
Seq/√Len: 110.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
63_T66_D3.4971.00
88_Q112_L2.9161.00
42_H58_Q2.4241.00
35_Y130_I2.3871.00
15_T42_H2.3271.00
37_L58_Q2.2831.00
111_V115_D2.2461.00
13_T73_M2.2001.00
62_G66_D2.1631.00
67_V71_V2.1311.00
84_W106_N2.1111.00
65_A89_E2.0471.00
87_A98_L2.0231.00
102_L128_I1.9861.00
61_Y68_P1.8341.00
21_A33_M1.8271.00
23_D50_V1.8061.00
42_H69_E1.8001.00
65_A92_A1.7941.00
7_A11_T1.7781.00
34_K38_D1.7581.00
8_G12_S1.7191.00
110_A122_M1.7041.00
9_I97_T1.6691.00
83_A100_M1.6371.00
129_E132_R1.5941.00
70_K96_K1.5521.00
15_T69_E1.5441.00
44_I69_E1.5121.00
64_L93_I1.4861.00
46_V67_V1.4521.00
87_A109_A1.4381.00
124_R129_E1.4211.00
54_T59_K1.3991.00
50_V55_L1.3931.00
24_K27_R1.3651.00
105_I123_D1.3261.00
84_W112_L1.3090.99
55_L60_G1.2800.99
82_A85_G1.2710.99
71_V93_I1.2690.99
76_V98_L1.2310.99
91_I116_A1.2290.99
13_T97_T1.2290.99
110_A120_V1.2170.99
39_Q130_I1.2170.99
73_M126_P1.2040.99
91_I112_L1.1860.99
112_L116_A1.1760.99
107_E122_M1.1690.99
85_G88_Q1.1520.99
73_M97_T1.1460.99
76_V100_M1.1360.99
15_T44_I1.1340.98
97_T119_N1.1290.98
13_T72_D1.1170.98
31_R127_A1.1120.98
18_L43_V1.1110.98
37_L56_L1.1090.98
111_V114_R1.0980.98
113_A118_L1.0760.98
87_A113_A1.0740.98
28_P31_R1.0630.98
91_I118_L1.0580.98
16_I73_M1.0490.97
79_N82_A1.0460.97
16_I126_P1.0280.97
110_A114_R1.0230.97
18_L33_M1.0010.97
8_G119_N0.9870.96
102_L129_E0.9820.96
28_P32_V0.9780.96
22_S29_S0.9750.96
127_A131_P0.9670.96
98_L113_A0.9650.96
30_Y34_K0.9640.96
83_A104_V0.9610.96
50_V53_K0.9580.96
107_E111_V0.9540.96
37_L43_V0.9520.96
78_R82_A0.9490.95
105_I122_M0.9460.95
91_I95_A0.9420.95
19_V74_V0.9380.95
95_A118_L0.9270.95
27_R79_N0.9260.95
35_Y127_A0.9040.94
63_T89_E0.9040.94
75_D126_P0.8990.94
84_W88_Q0.8990.94
37_L42_H0.8680.93
84_W108_Q0.8670.93
77_F101_Q0.8660.93
5_D119_N0.8640.93
94_G118_L0.8450.92
24_K49_K0.8420.92
106_N112_L0.8390.91
54_T60_G0.8350.91
21_A55_L0.8330.91
31_R34_K0.8070.90
106_N109_A0.8060.90
50_V60_G0.7970.89
8_G11_T0.7970.89
100_M120_V0.7920.89
16_I41_Y0.7730.88
47_S50_V0.7540.86
53_K59_K0.7510.86
53_K62_G0.7510.86
9_I121_V0.7400.85
90_A118_L0.7370.85
19_V90_A0.7330.85
49_K53_K0.7250.84
23_D49_K0.7240.84
88_Q92_A0.7040.83
30_Y56_L0.6980.82
83_A106_N0.6920.81
36_L126_P0.6860.81
90_A98_L0.6840.81
29_S33_M0.6840.81
96_K119_N0.6790.80
61_Y67_V0.6770.80
22_S86_V0.6750.80
44_I67_V0.6740.80
107_E110_A0.6740.80
35_Y39_Q0.6710.79
26_D31_R0.6700.79
36_L43_V0.6610.78
76_V86_V0.6580.78
85_G89_E0.6580.78
32_V77_F0.6490.77
5_D12_S0.6480.77
80_S106_N0.6470.77
76_V83_A0.6460.77
33_M36_L0.6450.77
12_S96_K0.6420.76
5_D8_G0.6390.76
54_T57_G0.6380.76
43_V58_Q0.6350.76
45_P60_G0.6340.75
21_A43_V0.6330.75
33_M43_V0.6310.75
91_I94_G0.6270.75
4_T7_A0.6200.74
27_R104_V0.6150.73
6_I124_R0.6100.73
19_V86_V0.6020.72
102_L127_A0.6020.72
4_T8_G0.6000.71
23_D30_Y0.5960.71
100_M113_A0.5930.71
87_A91_I0.5900.70
45_P59_K0.5880.70
67_V93_I0.5880.70
25_P30_Y0.5860.70
90_A95_A0.5780.69
23_D55_L0.5710.68
32_V101_Q0.5710.68
87_A112_L0.5660.67
72_D96_K0.5590.66
25_P34_K0.5570.66
25_P32_V0.5560.66
35_Y131_P0.5560.66
33_M56_L0.5540.65
90_A94_G0.5520.65
6_I121_V0.5520.65
21_A32_V0.5510.65
102_L105_I0.5490.65
31_R131_P0.5470.64
23_D29_S0.5440.64
75_D101_Q0.5360.63
88_Q91_I0.5360.63
47_S60_G0.5350.63
21_A37_L0.5330.62
80_S104_V0.5310.62
18_L21_A0.5300.62
58_Q61_Y0.5280.62
31_R35_Y0.5250.61
21_A60_G0.5190.60
41_Y47_S0.5160.60
13_T126_P0.5150.60
115_D118_L0.5150.60
10_L41_Y0.5110.59
23_D47_S0.5090.59
85_G106_N0.5070.59
22_S47_S0.5060.58
87_A106_N0.5040.58
27_R33_M0.5040.58
47_S79_N0.5030.58
21_A56_L0.5010.58
83_A87_A0.5000.58
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  
3ff4A 1 0.8832 99.9 0.502 Contact Map
2csuA 2 0.9416 99.9 0.544 Contact Map
2duwA 1 1 99.9 0.558 Contact Map
1iukA 1 0.9927 99.9 0.567 Contact Map
2d59A 1 0.9854 99.8 0.603 Contact Map
1y81A 1 0.8467 99.8 0.62 Contact Map
3pffA 2 0.9197 99.7 0.648 Contact Map
2fp4A 1 0.9781 99.6 0.677 Contact Map
2yv1A 1 0.9343 99.6 0.691 Contact Map
3mwdB 1 0.927 99.5 0.7 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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