GREMLIN Database
FER - Ferredoxin
UniProt: P50727 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 82 (75)
Sequences: 174 (108)
Seq/√Len: 12.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
26_Y55_M4.6901.00
9_K29_D3.9460.99
6_I76_G3.1480.97
7_V67_I3.0910.97
11_T66_S2.6080.92
25_I36_V2.3400.87
19_G68_K1.8270.69
55_M64_T1.8090.68
19_G64_T1.7650.66
25_I55_M1.7530.66
7_V17_A1.6550.61
20_A64_T1.6250.60
45_V48_P1.5970.58
42_K45_V1.5320.55
38_L48_P1.5110.54
21_A61_G1.4990.53
3_K71_D1.4820.53
36_V47_V1.4320.50
34_A64_T1.4320.50
26_Y52_E1.4030.49
17_A21_A1.3850.48
5_T26_Y1.3020.43
34_A53_E1.3000.43
54_D57_D1.2580.41
14_A27_D1.2570.41
24_D51_L1.2430.40
6_I70_A1.2360.40
26_Y36_V1.1910.38
9_K35_F1.1890.38
17_A61_G1.1460.36
10_D33_I1.1020.34
54_D61_G1.0850.33
26_Y34_A1.0250.30
38_L47_V0.9970.29
24_D48_P0.9910.29
4_Y24_D0.9690.28
19_G65_D0.9660.28
42_K47_V0.9580.27
31_E68_K0.9550.27
8_D28_Y0.9360.27
52_E56_I0.9330.26
34_A56_I0.9320.26
34_A47_V0.9310.26
30_D60_E0.9250.26
48_P72_E0.9200.26
50_V59_F0.8810.24
35_F47_V0.8680.24
21_A59_F0.8640.24
61_G65_D0.8580.24
60_E65_D0.8150.22
4_Y74_F0.8050.22
47_V54_D0.7990.21
39_D67_I0.7790.21
42_K49_E0.7690.20
5_T36_V0.7460.20
10_D60_E0.7430.20
59_F75_E0.7380.19
8_D11_T0.7330.19
7_V37_T0.7290.19
4_Y21_A0.7190.19
19_G28_Y0.7160.19
28_Y39_D0.7140.19
10_D71_D0.7070.18
55_M69_V0.7060.18
10_D57_D0.6970.18
28_Y41_N0.6870.18
26_Y45_V0.6820.18
33_I76_G0.6760.18
65_D72_E0.6710.17
51_L57_D0.6680.17
8_D68_K0.6680.17
50_V53_E0.6620.17
4_Y19_G0.6590.17
30_D69_V0.6590.17
40_E49_E0.6570.17
41_N67_I0.6540.17
44_V69_V0.6410.17
34_A49_E0.6310.16
14_A32_G0.6300.16
28_Y31_E0.6230.16
30_D71_D0.5960.15
10_D44_V0.5930.15
56_I67_I0.5880.15
22_A39_D0.5840.15
5_T47_V0.5780.15
22_A31_E0.5730.15
61_G64_T0.5580.14
2_A72_E0.5570.14
29_D35_F0.5560.14
37_T64_T0.5560.14
47_V75_E0.5560.14
37_T55_M0.5550.14
30_D75_E0.5550.14
8_D71_D0.5550.14
51_L54_D0.5520.14
45_V75_E0.5520.14
35_F38_L0.5510.14
24_D54_D0.5490.14
33_I70_A0.5480.14
26_Y59_F0.5430.14
37_T70_A0.5430.14
11_T54_D0.5370.14
40_E50_V0.5320.14
3_K69_V0.5280.14
38_L65_D0.5270.14
19_G52_E0.5180.13
57_D61_G0.5100.13
30_D57_D0.5100.13
9_K46_E0.5050.13
42_K56_I0.5030.13
6_I56_I0.5020.13
16_G25_I0.5000.13
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  
1iqzA 1 0.9878 98.9 0.711 Contact Map
4id8A 1 0.7927 98.1 0.774 Contact Map
1sj1A 2 0.7927 97.9 0.785 Contact Map
1daxA 1 0.7683 97.8 0.793 Contact Map
1rofA 1 0.7317 97.4 0.806 Contact Map
1f2gA 1 0.6951 97.4 0.807 Contact Map
3i9v3 1 0.9268 97.4 0.807 Contact Map
1dwlA 1 0.7073 97.2 0.814 Contact Map
1xerA 2 0.8415 96.9 0.82 Contact Map
1gteA 4 0.8659 96.7 0.825 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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