GREMLIN Database
YJDJ - Uncharacterized protein YjdJ
UniProt: P39274 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12467
Length: 90 (85)
Sequences: 717 (570)
Seq/√Len: 61.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
35_I75_A3.2311.00
62_R87_D3.1661.00
24_V36_E2.8041.00
35_I57_V2.7601.00
34_I71_L2.4751.00
77_H81_K2.3311.00
50_G74_F2.2391.00
76_K80_D2.1071.00
21_A44_L1.9881.00
60_K64_E1.9811.00
23_I35_I1.8981.00
27_P33_A1.8381.00
20_I44_L1.7911.00
61_M68_I1.7881.00
23_I57_V1.7640.99
22_E39_D1.7000.99
39_D45_K1.5930.99
4_R11_Y1.5760.99
33_A66_R1.5550.99
55_A59_E1.5460.99
54_V78_E1.4990.98
59_E63_R1.4730.98
28_T34_I1.4700.98
45_K51_K1.4580.98
6_G9_K1.4270.98
13_N49_I1.4190.98
56_K59_E1.3780.97
51_K82_T1.3580.97
44_L49_I1.3500.97
33_A57_V1.3170.96
27_P66_R1.2850.96
29_G32_L1.2820.95
13_N19_Q1.2740.95
5_E25_F1.2420.95
42_E45_K1.2350.94
78_E82_T1.1750.93
5_E60_K1.1550.92
82_T85_Y1.1380.92
51_K55_A1.1230.91
33_A61_M1.1130.91
74_F78_E1.0540.88
26_V36_E0.9950.85
18_K41_D0.9900.85
70_P79_F0.9800.84
73_P76_K0.9590.83
83_R86_D0.9310.81
77_H80_D0.9180.80
51_K78_E0.9090.79
78_E81_K0.9050.79
20_I41_D0.9040.79
31_N67_K0.9010.79
58_V62_R0.8950.78
18_K43_S0.8900.78
15_K44_L0.8860.78
12_I19_Q0.8730.77
79_F86_D0.8690.76
10_F14_D0.8390.74
9_K19_Q0.8120.71
9_K13_N0.7930.69
62_R88_I0.7800.68
34_I69_I0.7790.68
51_K74_F0.7720.67
48_G52_Q0.7660.67
28_T32_L0.7360.64
22_E45_K0.7340.63
28_T71_L0.7140.61
28_T73_P0.7130.61
44_L47_Q0.7050.60
50_G78_E0.7050.60
52_Q56_K0.7000.60
45_K48_G0.6940.59
13_N21_A0.6930.59
54_V75_A0.6900.59
54_V57_V0.6890.59
14_D50_G0.6850.58
22_E37_H0.6640.56
58_V70_P0.6630.56
23_I54_V0.6610.55
60_K63_R0.6590.55
10_F13_N0.6460.54
58_V85_Y0.6460.54
46_G81_K0.6390.53
22_E42_E0.6360.53
71_L76_K0.6350.52
39_D50_G0.6310.52
65_K83_R0.6300.52
11_Y60_K0.6270.52
51_K54_V0.6250.51
55_A82_T0.6090.49
40_V53_L0.6070.49
39_D73_P0.6050.49
33_A60_K0.6000.48
4_R15_K0.5990.48
12_I15_K0.5970.48
48_G51_K0.5970.48
54_V84_E0.5960.48
58_V79_F0.5900.47
17_G83_R0.5870.47
26_V34_I0.5870.47
54_V73_P0.5870.47
55_A74_F0.5840.47
21_A40_V0.5810.46
57_V61_M0.5800.46
14_D20_I0.5780.46
50_G81_K0.5780.46
23_I33_A0.5730.45
32_L74_F0.5710.45
73_P77_H0.5690.45
27_P60_K0.5670.45
11_Y21_A0.5630.44
10_F44_L0.5620.44
24_V37_H0.5620.44
9_K85_Y0.5570.44
14_D21_A0.5520.43
56_K65_K0.5470.42
9_K16_Q0.5360.41
38_T53_L0.5360.41
76_K79_F0.5320.41
26_V71_L0.5320.41
31_N86_D0.5310.41
19_Q39_D0.5300.41
8_N27_P0.5290.40
32_L69_I0.5230.40
11_Y32_L0.5130.39
25_F28_T0.5120.39
8_N11_Y0.5120.39
40_V56_K0.5020.38
28_T69_I0.5000.37
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  
1r57A 1 1 99.5 0.575 Contact Map
1xmtA 1 0.9556 99.4 0.608 Contact Map
2i00A 4 0.9889 98.5 0.724 Contact Map
3d8pA 1 0.9889 98.5 0.725 Contact Map
1yx0A 1 0.9889 98.5 0.725 Contact Map
2ganA 2 0.9778 98.4 0.726 Contact Map
1y9kA 1 0.9889 98.4 0.728 Contact Map
3lodA 1 0.9889 98.4 0.728 Contact Map
3s6fA 2 0.9889 98.4 0.728 Contact Map
1q2yA 1 0.9778 98.4 0.73 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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