GREMLIN Database
YTFA - Putative uncharacterized protein YtfA
UniProt: P39309 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12501
Length: 108 (98)
Sequences: 499 (348)
Seq/√Len: 35.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
46_I51_V3.8951.00
52_N69_L2.8751.00
30_E34_D2.7891.00
13_A80_P2.5101.00
3_S7_S2.3390.99
34_D38_K2.2810.99
46_I98_L2.2210.99
53_I69_L2.1940.99
37_K45_D2.1590.99
54_N93_T2.1200.99
9_G96_S2.1160.99
30_E48_P2.0660.99
3_S6_Q2.0310.98
25_H69_L1.9420.98
60_G64_I1.8760.97
35_E39_H1.8640.97
11_H14_K1.7420.96
47_D75_I1.7090.95
50_Q89_V1.6900.95
54_N86_R1.6820.95
27_Q30_E1.6750.95
93_T97_W1.6220.94
2_H60_G1.5990.93
22_N56_A1.4860.91
42_F95_L1.4820.90
22_N72_V1.4410.89
75_I85_A1.4280.89
31_S38_K1.4170.88
34_D37_K1.4000.88
61_Y65_N1.3570.86
88_K92_E1.3200.84
66_Q76_S1.2650.82
6_Q60_G1.2590.81
62_Y82_A1.1680.76
2_H6_Q1.1350.74
31_S81_Q1.1240.73
16_Q32_L1.1010.72
89_V97_W1.0980.72
50_Q85_A1.0930.71
56_A69_L1.0820.71
61_Y77_M1.0730.70
9_G22_N1.0430.68
54_N58_L1.0250.66
51_V95_L1.0210.66
25_H52_N1.0160.66
11_H91_K0.9590.61
50_Q86_R0.9540.61
24_A93_T0.9460.60
59_G66_Q0.9390.59
32_L58_L0.9320.59
59_G83_L0.9260.58
61_Y95_L0.9120.57
71_L74_H0.9020.56
47_D54_N0.8940.56
13_A18_L0.8890.55
12_Y18_L0.8880.55
52_N60_G0.8880.55
14_K44_P0.8820.55
29_M95_L0.8690.54
50_Q55_I0.8670.53
29_M64_I0.8650.53
76_S79_S0.8600.53
12_Y74_H0.8540.52
81_Q84_E0.8530.52
16_Q47_D0.8390.51
61_Y64_I0.8360.51
49_L75_I0.8300.50
52_N73_Y0.8300.50
33_L37_K0.8200.49
29_M37_K0.8140.49
67_H74_H0.8120.49
37_K44_P0.8060.48
28_L87_R0.8050.48
50_Q53_I0.8010.48
58_L86_R0.7890.47
20_E23_H0.7870.46
37_K46_I0.7800.46
58_L89_V0.7690.45
2_H62_Y0.7670.45
9_G72_V0.7650.45
32_L41_I0.7630.44
52_N62_Y0.7440.43
87_R90_I0.7410.43
76_S80_P0.7340.42
62_Y86_R0.7310.42
64_I87_R0.7270.41
44_P88_K0.7250.41
88_K91_K0.7220.41
84_E88_K0.7210.41
64_I73_Y0.7200.41
16_Q20_E0.7130.40
22_N25_H0.7100.40
10_V27_Q0.7080.40
7_S92_E0.7070.40
62_Y90_I0.6980.39
83_L91_K0.6970.39
53_I86_R0.6920.39
79_S84_E0.6780.37
53_I57_A0.6700.37
25_H61_Y0.6660.36
33_L46_I0.6620.36
29_M35_E0.6600.36
29_M49_L0.6510.35
37_K59_G0.6490.35
74_H90_I0.6390.34
15_S21_I0.6380.34
42_F73_Y0.6370.34
18_L21_I0.6360.34
43_K92_E0.6330.34
13_A44_P0.6290.34
17_R20_E0.6250.33
54_N57_A0.6230.33
31_S34_D0.6130.32
12_Y48_P0.6100.32
40_N67_H0.6090.32
7_S43_K0.5940.31
8_K67_H0.5780.30
33_L48_P0.5760.30
50_Q58_L0.5760.30
44_P70_G0.5750.30
31_S39_H0.5720.29
87_R91_K0.5710.29
61_Y69_L0.5680.29
78_V93_T0.5630.29
57_A94_I0.5610.29
46_I74_H0.5600.28
57_A69_L0.5580.28
94_I97_W0.5560.28
14_K31_S0.5560.28
33_L51_V0.5510.28
52_N56_A0.5460.27
60_G63_L0.5450.27
10_V79_S0.5440.27
73_Y86_R0.5430.27
2_H33_L0.5430.27
59_G90_I0.5370.27
80_P84_E0.5330.27
26_L53_I0.5320.27
70_G77_M0.5290.26
38_K44_P0.5260.26
26_L67_H0.5150.25
30_E47_D0.5150.25
85_A94_I0.5130.25
35_E73_Y0.5100.25
28_L97_W0.5090.25
15_S18_L0.5010.25
80_P83_L0.5000.24
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  
3npiA 2 0.9907 98.5 0.761 Contact Map
2pz9A 2 0.8056 97.7 0.806 Contact Map
2qtqA 2 0.9259 97.7 0.806 Contact Map
3gziA 2 0.9167 97.3 0.821 Contact Map
4jykA 2 0.9259 96.6 0.837 Contact Map
2d6yA 2 0.8704 96.5 0.838 Contact Map
3s5rA 2 0.9074 96 0.846 Contact Map
2zcxA 2 0.9444 94.8 0.858 Contact Map
3dewA 2 0.8796 94.6 0.859 Contact Map
2qwtA 1 0.6481 94.6 0.859 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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