GREMLIN Database
YRAJ - Uncharacterized protein YraJ
UniProt: O07934 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 118 (95)
Sequences: 737 (670)
Seq/√Len: 68.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
45_G50_Y5.5001.00
47_G50_Y4.7371.00
40_V88_W3.0681.00
62_V75_G2.9421.00
73_V89_K2.7131.00
66_C74_T2.6491.00
62_V89_K2.4851.00
73_V86_I2.4441.00
42_M75_G2.3761.00
41_N55_S2.1221.00
56_I62_V2.0491.00
42_M56_I2.0461.00
40_V84_D1.9881.00
63_P76_K1.8081.00
54_L77_Y1.8021.00
85_Q88_W1.7561.00
74_T81_N1.6790.99
66_C83_W1.6760.99
41_N52_I1.6080.99
44_S51_P1.6050.99
68_A83_W1.5520.99
13_M16_S1.5260.99
40_V85_Q1.5190.99
39_P55_S1.4930.99
77_Y82_I1.4010.98
56_I84_D1.2930.97
42_M54_L1.1710.94
65_Y76_K1.1680.94
12_V16_S1.1350.94
39_P57_P1.1330.93
35_S40_V1.0860.92
34_T92_R1.0840.92
57_P60_S1.0650.91
75_G84_D1.0620.91
86_I89_K1.0130.89
75_G82_I1.0130.89
34_T93_G1.0110.89
99_Y103_T1.0050.89
84_D89_K0.9850.88
37_G40_V0.9740.87
64_Y89_K0.9740.87
41_N70_G0.9630.86
17_L20_F0.9470.85
76_K79_T0.9400.85
61_R92_R0.9170.83
9_M19_I0.9070.83
64_Y73_V0.8940.82
12_V18_F0.8910.82
53_M82_I0.8840.81
30_F64_Y0.8830.81
43_R88_W0.8680.80
67_Y91_S0.8640.80
65_Y81_N0.8570.79
53_M77_Y0.8440.78
95_V103_T0.8370.77
85_Q89_K0.8350.77
39_P59_G0.8310.77
11_T22_S0.8270.77
93_G96_N0.8210.76
42_M77_Y0.8060.75
54_L75_G0.7970.74
70_G86_I0.7920.73
15_A18_F0.7850.73
33_S73_V0.7780.72
56_I60_S0.7770.72
15_A20_F0.7740.72
44_S50_Y0.7690.71
44_S48_T0.7390.68
64_Y82_I0.7320.67
37_G55_S0.7320.67
77_Y83_W0.7300.67
22_S26_A0.7190.66
13_M53_M0.7180.66
42_M53_M0.7160.66
48_T85_Q0.7150.66
10_L17_L0.7070.65
99_Y102_D0.7060.65
100_V103_T0.7050.65
10_L15_A0.6920.63
65_Y89_K0.6850.62
33_S64_Y0.6800.62
59_G73_V0.6790.62
45_G48_T0.6770.61
19_I23_Q0.6760.61
20_F94_V0.6740.61
26_A32_V0.6740.61
75_G83_W0.6700.61
46_P72_T0.6690.61
74_T83_W0.6670.60
30_F58_S0.6600.59
56_I89_K0.6570.59
9_M53_M0.6560.59
96_N101_S0.6470.58
42_M84_D0.6470.58
62_V77_Y0.6450.58
38_A58_S0.6430.57
12_V19_I0.6420.57
98_G101_S0.6350.57
43_R46_P0.6300.56
49_N69_Y0.6290.56
97_I100_V0.6290.56
14_I17_L0.6280.56
51_P57_P0.6280.56
48_T87_Q0.6220.55
13_M18_F0.6190.55
9_M23_Q0.6190.55
36_S90_D0.6180.55
13_M19_I0.6180.55
16_S23_Q0.6130.54
36_S40_V0.6130.54
83_W86_I0.6120.54
52_I85_Q0.6090.53
57_P62_V0.5990.52
50_Y83_W0.5960.52
40_V43_R0.5950.52
10_L14_I0.5870.51
56_I77_Y0.5830.50
11_T14_I0.5770.50
18_F21_S0.5760.50
69_Y73_V0.5740.49
9_M15_A0.5720.49
19_I22_S0.5580.47
11_T17_L0.5580.47
35_S39_P0.5510.47
86_I91_S0.5510.47
47_G83_W0.5500.46
47_G86_I0.5500.46
97_I102_D0.5480.46
15_A53_M0.5420.45
64_Y92_R0.5360.45
34_T59_G0.5290.44
46_P85_Q0.5200.43
19_I46_P0.5130.42
11_T16_S0.5120.42
37_G59_G0.5100.42
81_N94_V0.5070.41
81_N100_V0.5050.41
40_V64_Y0.5040.41
51_P59_G0.5030.41
43_R72_T0.5020.41
97_I103_T0.5010.41
83_W99_Y0.5000.40
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  
2kt8A 1 0.6356 99.2 0.488 Contact Map
2kq8A 1 0.5932 99.2 0.498 Contact Map
2krsA 1 0.6186 99.2 0.5 Contact Map
3npfA 2 0.8136 98.7 0.575 Contact Map
4krtA 1 0.7288 98.6 0.589 Contact Map
3h41A 1 0.9576 98.5 0.601 Contact Map
3m1uA 2 0.9915 97.8 0.671 Contact Map
2hbwA 1 0.6949 97.7 0.677 Contact Map
4mt7A 1 0.0678 93.8 0.776 Contact Map
1v1cA 1 0.5169 93.3 0.78 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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