GREMLIN Database
YHDN - Uncharacterized protein YhdN
UniProt: P36677 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11970
Length: 122 (118)
Sequences: 375 (279)
Seq/√Len: 25.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
34_D48_R5.2811.00
34_D37_S3.2821.00
46_G49_L3.1631.00
16_Q21_F3.0921.00
58_P61_E2.9201.00
43_L72_I2.7460.99
94_E98_R2.4900.99
56_L60_L2.3350.98
93_L97_L2.1660.97
61_E64_R2.1170.97
57_P60_L1.9530.95
15_A20_E1.9120.94
58_P100_A1.8640.93
14_E18_K1.8320.92
22_D27_S1.8210.92
56_L73_L1.7840.91
14_E69_L1.7610.91
7_W10_R1.7560.91
80_D86_V1.7040.89
91_S98_R1.7030.89
43_L47_Y1.6240.87
71_D74_K1.5530.84
8_A65_E1.5180.83
92_L96_K1.4990.82
18_K27_S1.4920.82
112_A116_L1.4520.80
13_A17_A1.3940.77
26_G31_L1.3870.77
21_F53_A1.3440.75
80_D107_L1.3420.74
15_A97_L1.3250.73
10_R14_E1.3010.72
66_A90_L1.3010.72
21_F27_S1.3000.72
47_Y72_I1.2720.70
9_E23_N1.2610.70
97_L101_G1.2550.69
46_G50_L1.2490.69
33_L37_S1.2460.69
39_V57_P1.2240.67
16_Q56_L1.2210.67
21_F76_I1.1780.64
91_S94_E1.1670.64
59_E90_L1.1640.63
8_A12_I1.1590.63
78_H82_Q1.1550.63
4_L70_L1.1520.62
10_R13_A1.1430.62
89_R93_L1.1420.62
113_D117_D1.1330.61
37_S40_P1.1290.61
31_L35_D1.1000.59
8_A45_A1.0980.59
18_K29_E1.0620.56
104_T107_L1.0590.56
116_L119_I1.0590.56
7_W11_H1.0450.55
17_A64_R1.0330.54
32_I37_S1.0100.52
38_H45_A0.9910.51
7_W62_Q0.9730.50
10_R49_L0.9700.49
92_L95_L0.9610.49
12_I29_E0.9510.48
2_W5_D0.9480.48
108_R112_A0.9280.46
60_L64_R0.9240.46
38_H63_R0.9230.46
30_P50_L0.9230.46
39_V43_L0.9220.46
60_L67_I0.9200.46
29_E119_I0.9110.45
36_D99_Q0.9090.45
11_H45_A0.9010.44
109_G114_K0.8950.44
20_E28_G0.8710.42
89_R113_D0.8360.40
33_L48_R0.8350.40
35_D59_E0.8300.39
30_P76_I0.8300.39
23_N48_R0.8300.39
79_D82_Q0.8280.39
8_A21_F0.8210.39
90_L96_K0.8180.38
36_D48_R0.8150.38
50_L61_E0.8020.37
65_E89_R0.8000.37
33_L36_D0.7980.37
16_Q104_T0.7930.37
4_L49_L0.7920.37
37_S60_L0.7890.36
35_D52_N0.7790.36
106_F110_D0.7770.36
13_A16_Q0.7600.34
47_Y90_L0.7530.34
31_L38_H0.7500.34
46_G108_R0.7410.33
115_L119_I0.7330.33
44_R107_L0.7290.32
104_T110_D0.7200.32
21_F24_L0.7120.31
46_G77_R0.7120.31
98_R101_G0.7090.31
14_E118_K0.7030.31
38_H44_R0.7020.31
23_N84_Q0.7000.31
4_L91_S0.6980.31
46_G98_R0.6970.30
14_E74_K0.6920.30
13_A29_E0.6870.30
22_D112_A0.6830.30
29_E50_L0.6830.30
60_L97_L0.6750.29
25_A28_G0.6720.29
10_R77_R0.6720.29
79_D87_S0.6700.29
34_D73_L0.6680.29
49_L53_A0.6640.28
55_C69_L0.6540.28
84_Q99_Q0.6510.28
37_S48_R0.6480.27
61_E65_E0.6410.27
42_E63_R0.6380.27
62_Q96_K0.6380.27
34_D86_V0.6360.27
58_P108_R0.6340.27
7_W64_R0.6220.26
23_N27_S0.6200.26
39_V97_L0.6190.26
34_D39_V0.6190.26
90_L113_D0.6140.26
16_Q106_F0.6060.25
3_L14_E0.6050.25
49_L84_Q0.5980.25
24_L28_G0.5960.25
99_Q106_F0.5940.24
5_D11_H0.5940.24
112_A119_I0.5890.24
77_R81_P0.5870.24
18_K30_P0.5870.24
4_L62_Q0.5840.24
70_L74_K0.5820.24
45_A119_I0.5820.24
8_A63_R0.5750.23
58_P82_Q0.5740.23
31_L84_Q0.5730.23
4_L7_W0.5730.23
74_K116_L0.5730.23
7_W66_A0.5720.23
105_D119_I0.5670.23
50_L77_R0.5650.23
7_W89_R0.5620.23
33_L47_Y0.5550.22
87_S110_D0.5510.22
85_E112_A0.5450.22
68_Q85_E0.5430.22
101_G104_T0.5410.22
62_Q81_P0.5400.22
76_I100_A0.5390.22
67_I71_D0.5380.22
21_F77_R0.5350.21
63_R107_L0.5330.21
113_D119_I0.5300.21
76_I97_L0.5240.21
8_A85_E0.5230.21
62_Q97_L0.5190.21
114_K118_K0.5170.21
8_A16_Q0.5160.20
50_L66_A0.5150.20
85_E88_R0.5140.20
39_V72_I0.5130.20
55_C94_E0.5110.20
36_D93_L0.5050.20
51_K98_R0.5040.20
5_D58_P0.5020.20
6_Q16_Q0.5010.20
31_L42_E0.5000.20
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  
4uxvA 1 0.918 47.7 0.924 Contact Map
1bh9B 1 0.3525 29.8 0.932 Contact Map
1mhqA 1 0.3852 15.6 0.941 Contact Map
3ca8A 1 0.4836 14.4 0.942 Contact Map
4ad8A 1 0.9754 12.3 0.943 Contact Map
3nl9A 2 0.4672 10.4 0.945 Contact Map
3g06A 1 0.8197 8.4 0.948 Contact Map
4h0eA 2 0.5082 7.9 0.948 Contact Map
4y21A 1 0.6393 7.7 0.948 Contact Map
1g6uA 3 0.3934 7.7 0.948 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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