GREMLIN Database
YVDQ - Uncharacterized protein YvdQ
UniProt: O06998 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 170 (151)
Sequences: 976 (821)
Seq/√Len: 66.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
53_E146_K4.7041.00
44_D154_K4.2391.00
46_D153_N3.4881.00
54_S143_T3.2771.00
21_L65_V3.2591.00
50_L147_Y2.9081.00
130_A145_A2.5991.00
61_E139_S2.5381.00
38_L102_V2.2901.00
28_G61_E2.2281.00
60_D139_S2.1841.00
132_M136_F2.1621.00
134_G145_A2.0281.00
64_Q135_Q2.0271.00
28_G31_M1.9881.00
31_M58_C1.8921.00
55_I73_G1.8601.00
34_N105_S1.8441.00
18_V74_V1.7471.00
43_G95_A1.7171.00
29_N62_I1.7000.99
51_L102_V1.6430.99
41_H95_A1.6260.99
21_L68_I1.5320.99
134_G141_A1.5280.99
13_M21_L1.5200.99
103_A151_L1.4980.99
24_Y133_F1.4830.99
13_M68_I1.4760.99
13_M129_I1.4460.98
145_A149_R1.4430.98
47_L103_A1.4410.98
61_E117_C1.4390.98
119_K123_Q1.4330.98
63_K67_T1.4330.98
50_L150_L1.4310.98
98_L150_L1.4240.98
134_G142_A1.4160.98
42_V47_L1.4040.98
103_A150_L1.3740.98
121_M134_G1.3530.97
11_E159_P1.3330.97
20_G120_M1.3070.97
125_I157_L1.2890.97
151_L156_W1.2880.96
115_V118_S1.2870.96
127_E149_R1.2830.96
31_M113_G1.2760.96
144_G148_L1.2700.96
27_A116_T1.2690.96
20_G123_Q1.2690.96
67_T70_K1.2630.96
42_V51_L1.2580.96
72_N126_R1.2030.95
67_T71_E1.1890.94
35_Y106_A1.1850.94
134_G138_M1.1370.93
22_W44_D1.1300.93
100_P156_W1.1130.92
135_Q139_S1.1010.92
127_E145_A1.1000.92
25_V62_I1.0800.91
52_R56_E1.0630.90
47_L150_L1.0540.90
105_S109_E1.0540.90
38_L97_F1.0530.90
32_V59_Q1.0520.90
10_D71_E1.0480.90
41_H102_V1.0410.89
31_M140_K1.0370.89
64_Q139_S1.0300.89
46_D154_K1.0280.89
22_W50_L1.0200.89
13_M18_V1.0180.88
39_L42_V1.0110.88
57_K143_T1.0070.88
115_V119_K0.9870.87
36_Q59_Q0.9860.87
28_G143_T0.9850.87
159_P162_L0.9830.87
45_D49_K0.9790.86
27_A108_A0.9700.86
76_L80_S0.9660.86
64_Q132_M0.9630.85
142_A146_K0.9600.85
40_N89_N0.9490.85
56_E63_K0.9460.84
40_N88_L0.9450.84
54_S140_K0.9440.84
66_S76_L0.9430.84
29_N66_S0.9410.84
24_Y117_C0.9400.84
54_S57_K0.9280.83
26_M29_N0.9260.83
117_C136_F0.9040.82
118_S137_H0.9030.82
28_G140_K0.8820.80
18_V163_H0.8760.80
74_V163_H0.8750.80
32_V58_C0.8630.79
58_C113_G0.8610.78
31_M54_S0.8590.78
28_G54_S0.8510.78
39_L52_R0.8430.77
62_I73_G0.8390.77
32_V81_P0.8170.75
33_G80_S0.8120.74
25_V66_S0.8080.74
106_A147_Y0.8030.73
53_E64_Q0.7890.72
102_V158_I0.7890.72
46_D146_K0.7850.72
13_M17_E0.7840.72
148_L157_L0.7810.71
48_K52_R0.7750.71
52_R55_I0.7660.70
117_C140_K0.7660.70
32_V62_I0.7610.69
69_L88_L0.7590.69
36_Q82_E0.7580.69
90_D96_R0.7570.69
155_G159_P0.7550.69
114_L118_S0.7520.68
54_S110_N0.7510.68
127_E163_H0.7490.68
29_N79_A0.7480.68
18_V75_A0.7420.67
11_E152_K0.7420.67
67_T76_L0.7300.66
42_V48_K0.7240.65
124_S130_A0.7230.65
130_A148_L0.7230.65
68_I132_M0.7230.65
53_E57_K0.7160.65
21_L132_M0.7140.64
19_F101_D0.7130.64
20_G115_V0.7090.64
44_D48_K0.7080.64
39_L48_K0.7070.64
10_D87_D0.7070.64
29_N80_S0.7060.64
55_I140_K0.7050.63
59_Q82_E0.6990.63
137_H141_A0.6930.62
48_K99_D0.6920.62
60_D64_Q0.6900.62
61_E104_A0.6900.62
103_A121_M0.6850.61
149_R153_N0.6850.61
11_E74_V0.6840.61
55_I59_Q0.6780.60
22_W77_P0.6770.60
28_G113_G0.6710.60
46_D57_K0.6700.59
8_P125_I0.6680.59
16_G123_Q0.6670.59
34_N110_N0.6660.59
42_V99_D0.6660.59
37_M86_A0.6640.59
87_D90_D0.6620.59
32_V55_I0.6570.58
27_A120_M0.6450.57
18_V123_Q0.6300.55
41_H96_R0.6290.55
107_A148_L0.6240.54
121_M137_H0.6190.54
51_L147_Y0.6160.53
95_A102_V0.6040.52
89_N162_L0.6030.52
152_K159_P0.6020.52
22_W79_A0.6020.52
121_M149_R0.6010.51
75_A120_M0.6010.51
33_G36_Q0.5990.51
34_N109_E0.5990.51
16_G46_D0.5970.51
121_M141_A0.5940.51
30_K34_N0.5920.50
28_G62_I0.5910.50
122_G160_P0.5890.50
16_G22_W0.5860.50
27_A107_A0.5810.49
56_E142_A0.5780.49
25_V77_P0.5780.49
85_T96_R0.5780.49
78_P95_A0.5750.48
29_N163_H0.5750.48
138_M142_A0.5740.48
53_E145_A0.5700.48
117_C132_M0.5690.48
111_A130_A0.5690.48
20_G116_T0.5620.47
22_W36_Q0.5620.47
37_M149_R0.5600.47
59_Q88_L0.5570.46
101_D145_A0.5550.46
13_M38_L0.5530.46
15_Y162_L0.5510.46
28_G38_L0.5500.45
19_F134_G0.5470.45
107_A147_Y0.5460.45
112_A163_H0.5440.45
57_K139_S0.5440.45
9_Q72_N0.5390.44
88_L158_I0.5390.44
97_F104_A0.5390.44
64_Q127_E0.5350.44
39_L51_L0.5330.43
13_M103_A0.5280.43
115_V133_F0.5230.42
81_P104_A0.5210.42
103_A154_K0.5200.42
42_V90_D0.5190.42
36_Q87_D0.5180.42
34_N59_Q0.5170.42
30_K101_D0.5170.42
35_Y109_E0.5140.41
14_H19_F0.5120.41
24_Y120_M0.5110.41
38_L158_I0.5110.41
20_G27_A0.5100.41
10_D67_T0.5040.40
21_L141_A0.5020.40
37_M88_L0.5010.40
43_G129_I0.5010.40
134_G146_K0.5000.40
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

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  
2rbdA 4 0.9353 100 0.314 Contact Map
4etrA 1 0.7118 94.5 0.88 Contact Map
2gyqA 2 0.8882 93.3 0.886 Contact Map
3q4oA 2 0.8824 92.5 0.889 Contact Map
3bt5A 1 0.8176 86.9 0.902 Contact Map
2oh3A 2 0.8059 84.7 0.904 Contact Map
1vjxA 1 0.8471 83.9 0.905 Contact Map
2qf9A 2 0.8824 80 0.909 Contact Map
2fzfA 2 0.8706 79.1 0.91 Contact Map
3oghB 2 0.8118 66.7 0.918 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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