GREMLIN Database
YPJD - Uncharacterized protein YpjD
UniProt: P42979 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 111 (103)
Sequences: 547 (196)
Seq/√Len: 19.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
65_E92_V3.9701.00
26_S51_E3.4801.00
12_E97_N3.2040.99
89_H93_M2.9050.99
11_A15_R2.6650.98
41_L67_I2.6010.98
31_M35_T2.5180.97
7_K84_S2.4210.96
9_I75_V2.3380.96
67_I74_L2.3380.96
16_Y21_K2.2630.95
64_E88_A2.2600.95
67_I77_L2.1900.94
9_I89_H2.0750.92
22_E105_T2.0530.91
45_V77_L1.8510.86
12_E90_D1.7830.84
68_G92_V1.7620.83
28_L32_A1.7490.83
75_V85_L1.7310.82
38_L70_V1.5600.75
98_T101_K1.5590.74
31_M72_F1.5150.72
22_E104_W1.5010.72
94_H98_T1.4810.71
87_E91_R1.4690.70
86_E90_D1.4380.68
35_T72_F1.3830.65
38_L89_H1.3580.64
31_M38_L1.3500.63
56_A59_D1.3320.62
48_R62_S1.2970.60
5_T91_R1.2610.58
7_K11_A1.2560.57
61_K65_E1.2460.57
20_F72_F1.2390.56
12_E94_H1.2390.56
31_M42_A1.2300.56
34_L77_L1.1860.53
72_F93_M1.1090.48
29_A53_P1.0890.47
53_P104_W1.0490.44
9_I93_M1.0420.44
22_E53_P1.0320.43
98_T102_D1.0080.42
20_F31_M1.0080.42
11_A75_V0.9950.41
28_L46_N0.9910.41
16_Y30_M0.9770.40
92_V96_F0.9670.39
29_A51_E0.9350.37
25_F73_V0.9300.37
53_P107_K0.9130.36
42_A46_N0.9050.36
8_D12_E0.8920.35
30_M53_P0.8710.34
56_A63_M0.8610.33
7_K94_H0.8510.32
90_D94_H0.8400.32
6_M75_V0.8170.31
30_M76_C0.8120.30
15_R19_Q0.8120.30
76_C104_W0.8100.30
20_F33_R0.8040.30
72_F105_T0.7980.30
7_K90_D0.7890.29
51_E81_L0.7830.29
53_P105_T0.7750.28
17_I88_A0.7710.28
20_F35_T0.7710.28
62_S91_R0.7630.28
91_R94_H0.7590.28
5_T8_D0.7510.27
30_M80_S0.7500.27
87_E90_D0.7490.27
64_E68_G0.7460.27
30_M104_W0.7440.27
36_E40_E0.7400.27
41_L63_M0.7340.26
22_E30_M0.7320.26
18_G105_T0.7280.26
30_M34_L0.7250.26
29_A81_L0.7210.26
26_S29_A0.7160.25
45_V74_L0.7100.25
25_F96_F0.7080.25
47_H52_K0.7060.25
19_Q45_V0.7060.25
10_Q88_A0.6980.25
12_E93_M0.6960.24
102_D106_R0.6890.24
11_A90_D0.6880.24
21_K77_L0.6820.24
48_R60_D0.6690.23
56_A90_D0.6610.23
23_G44_E0.6550.23
16_Y38_L0.6510.22
46_N52_K0.6510.22
71_L86_E0.6510.22
32_A35_T0.6470.22
20_F106_R0.6460.22
6_M9_I0.6380.22
41_L92_V0.6320.22
91_R102_D0.6300.22
27_P54_K0.6300.22
89_H92_V0.6290.21
23_G52_K0.6260.21
57_T61_K0.6240.21
6_M68_G0.6180.21
49_Y81_L0.6160.21
5_T86_E0.6150.21
23_G27_P0.6120.21
73_V96_F0.6100.21
43_R58_E0.6080.21
64_E77_L0.6070.21
64_E92_V0.5960.20
31_M70_V0.5940.20
41_L44_E0.5940.20
100_D103_R0.5920.20
7_K35_T0.5920.20
15_R94_H0.5890.20
13_V88_A0.5880.20
75_V89_H0.5860.20
31_M45_V0.5770.19
59_D65_E0.5760.19
25_F51_E0.5750.19
44_E48_R0.5720.19
86_E92_V0.5700.19
21_K107_K0.5680.19
12_E89_H0.5670.19
44_E52_K0.5590.19
71_L102_D0.5580.19
75_V98_T0.5580.19
62_S65_E0.5560.19
65_E68_G0.5520.18
8_D11_A0.5460.18
33_R47_H0.5410.18
18_G22_E0.5380.18
34_L73_V0.5370.18
17_I51_E0.5290.17
20_F105_T0.5270.17
47_H80_S0.5240.17
86_E91_R0.5230.17
60_D83_I0.5220.17
56_A60_D0.5120.17
49_Y73_V0.5120.17
41_L68_G0.5060.17
43_R50_G0.5060.17
72_F83_I0.5060.17
11_A84_S0.5060.17
29_A48_R0.5040.17
48_R71_L0.5030.17
33_R72_F0.5020.17
15_R87_E0.5000.16
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  
2gtaA 4 0.9459 99.9 0.566 Contact Map
4dk2A 2 0.8198 99.7 0.649 Contact Map
2q73A 4 0.8198 99.7 0.666 Contact Map
2q5zA 4 0.8559 99.6 0.682 Contact Map
2a3qA 3 0.9369 99.6 0.686 Contact Map
4qgpA 4 0.9189 99.6 0.686 Contact Map
2yf4A 5 0.9369 99.5 0.694 Contact Map
2oieA 3 0.8559 99.5 0.696 Contact Map
1vmgA 4 0.6847 99.2 0.738 Contact Map
3craA 2 0.8559 99.2 0.746 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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