GREMLIN Database
YGCO - Ferredoxin-like protein YgcO
UniProt: Q46905 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13122
Length: 86 (84)
Sequences: 357 (205)
Seq/√Len: 22.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
23_E30_L3.9781.00
25_Q30_L3.9221.00
76_P79_F3.4201.00
17_V71_Q2.5830.99
11_A76_P2.3310.97
8_W77_S2.0530.94
38_L50_D2.0320.94
23_E64_C2.0060.93
11_A39_F1.9950.93
37_G40_S1.8150.89
30_L64_C1.7870.88
16_I38_L1.6920.85
33_A49_I1.6250.83
30_L63_L1.6240.83
8_W84_R1.6040.82
41_L47_L1.5580.80
29_R68_T1.5550.80
14_P49_I1.5250.79
29_R65_D1.4510.75
14_P74_Y1.4290.74
4_A7_L1.4170.73
60_C72_W1.4100.73
3_V39_F1.3960.72
38_L53_S1.3930.72
8_W38_L1.3260.68
25_Q64_C1.2710.65
33_A63_L1.2460.63
2_S53_S1.2350.62
17_V69_L1.2290.62
16_I49_I1.2190.61
12_D52_R1.2070.61
4_A84_R1.1900.59
23_E63_L1.1810.59
19_A22_V1.1780.59
28_E41_L1.1670.58
7_L78_G1.1200.55
16_I53_S1.0840.52
42_T48_R1.0780.52
40_S59_T1.0610.51
41_L46_N1.0480.50
4_A16_I1.0320.49
24_R74_Y0.9710.45
9_R40_S0.9540.43
4_A78_G0.9460.43
31_I39_F0.9360.42
29_R73_R0.9340.42
31_I41_L0.9260.42
40_S73_R0.9240.41
53_S61_R0.9210.41
18_P49_I0.8650.38
16_I59_T0.8590.37
13_A76_P0.8580.37
27_A65_D0.8580.37
18_P69_L0.8510.37
6_N53_S0.8480.36
37_G59_T0.8380.36
38_L49_I0.8260.35
4_A49_I0.8110.34
61_R67_S0.8070.34
6_N85_F0.7950.33
14_P17_V0.7940.33
32_N49_I0.7920.33
3_V55_L0.7890.33
42_T46_N0.7770.32
38_L51_Y0.7730.32
38_L52_R0.7480.30
6_N36_A0.7420.30
26_T73_R0.7380.30
19_A43_P0.7340.30
5_R52_R0.7270.29
8_W20_D0.7210.29
77_S83_Y0.7140.28
22_V25_Q0.7130.28
22_V66_E0.7100.28
6_N81_I0.7070.28
65_D68_T0.7060.28
43_P83_Y0.7040.28
7_L84_R0.7030.28
2_S5_R0.7020.28
41_L44_E0.6970.27
10_V62_L0.6920.27
5_R53_S0.6830.27
41_L45_G0.6730.26
6_N74_Y0.6700.26
21_S46_N0.6650.26
38_L84_R0.6600.25
3_V8_W0.6590.25
47_L82_T0.6560.25
18_P46_N0.6470.25
18_P76_P0.6420.25
27_A30_L0.6350.24
33_A77_S0.6320.24
33_A51_Y0.6290.24
13_A51_Y0.6240.24
22_V40_S0.6230.24
47_L85_F0.6150.23
16_I19_A0.6110.23
68_T83_Y0.6080.23
21_S42_T0.6030.23
19_A71_Q0.6030.23
16_I81_I0.5970.22
13_A63_L0.5930.22
14_P38_L0.5910.22
8_W53_S0.5850.22
6_N14_P0.5840.22
19_A68_T0.5840.22
71_Q81_I0.5840.22
6_N37_G0.5760.21
26_T65_D0.5660.21
33_A38_L0.5650.21
26_T83_Y0.5570.20
18_P82_T0.5530.20
48_R55_L0.5530.20
21_S73_R0.5470.20
26_T68_T0.5470.20
23_E32_N0.5360.20
37_G53_S0.5280.19
12_D45_G0.5260.19
31_I79_F0.5250.19
47_L77_S0.5240.19
16_I41_L0.5210.19
66_E81_I0.5160.19
20_D68_T0.5120.19
17_V40_S0.5050.18
38_L59_T0.5050.18
16_I68_T0.5000.18
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  
2gmhA 1 0.9884 99.6 0.597 Contact Map
1q16B 2 0.9651 98.3 0.755 Contact Map
3mm5B 2 0.9535 98.1 0.772 Contact Map
1hfeL 2 0.9767 98 0.775 Contact Map
3gyxB 1 0.8256 98 0.778 Contact Map
2ivfB 1 0.9535 97.9 0.781 Contact Map
3or1B 2 0.9884 97.8 0.784 Contact Map
1kqfB 3 0.9535 97.8 0.786 Contact Map
1jnrB 1 0.8256 97.8 0.787 Contact Map
1xerA 2 0.8372 97.8 0.787 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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