GREMLIN Database
FER - Ferredoxin
UniProt: P00216 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 129 (111)
Sequences: 1673 (1048)
Seq/√Len: 99.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
80_E108_A5.5601.00
74_S102_T4.7981.00
91_D96_E4.5061.00
80_E109_A3.8401.00
78_E111_E3.4321.00
47_E55_A3.2791.00
81_I105_G2.8971.00
84_D106_S2.7621.00
53_A60_W2.4531.00
76_V100_R2.2971.00
78_E113_K2.1451.00
39_G58_Y2.0831.00
54_E65_R2.0031.00
29_A40_T1.9371.00
48_Y51_E1.7721.00
30_D34_D1.6861.00
114_I117_N1.6481.00
31_A34_D1.6381.00
49_I112_V1.6131.00
83_M94_V1.6051.00
81_I112_V1.5961.00
77_K115_V1.3700.99
75_I99_V1.3380.99
86_Q94_V1.3280.99
28_A31_A1.2480.99
62_F65_R1.2460.99
44_A47_E1.2440.99
51_E65_R1.2100.99
43_V49_I1.2070.99
87_Q91_D1.1240.98
8_N12_L1.1130.98
82_D106_S1.0990.97
41_M56_Q1.0610.97
41_M52_A1.0590.97
77_K113_K1.0530.97
47_E52_A1.0500.96
49_I53_A1.0450.96
63_S66_A1.0440.96
85_M88_I1.0430.96
17_W20_D1.0240.96
100_R105_G1.0140.96
10_E14_D1.0070.96
54_E62_F1.0000.95
50_L54_E0.9910.95
29_A111_E0.9880.95
88_I93_E0.9830.95
73_A99_V0.9750.95
54_E60_W0.9610.94
9_Y13_D0.9570.94
45_E110_D0.9520.94
15_Q20_D0.9430.94
73_A93_E0.9380.94
28_A32_G0.9250.93
26_E110_D0.9190.93
102_T116_Y0.9140.93
71_N87_Q0.9110.92
22_D26_E0.9090.92
50_L60_W0.9030.92
29_A32_G0.8920.92
20_D24_L0.8890.92
32_G53_A0.8820.91
90_S104_I0.8790.91
29_A42_E0.8640.90
111_E114_I0.8610.90
33_L38_Y0.8550.90
9_Y21_D0.8450.89
33_L113_K0.8440.89
19_M22_D0.8390.89
82_D105_G0.8370.89
52_A55_A0.8370.89
6_Y21_D0.8360.89
68_A73_A0.8280.88
78_E112_V0.8240.88
70_A88_I0.8140.88
65_R70_A0.8100.87
92_E96_E0.8080.87
86_Q104_I0.8060.87
83_M93_E0.8050.87
59_D90_S0.8020.87
19_M23_D0.8020.87
83_M100_R0.7980.87
48_Y65_R0.7940.86
18_D22_D0.7850.86
105_G109_A0.7840.86
24_L28_A0.7800.85
85_M94_V0.7770.85
73_A87_Q0.7730.85
54_E66_A0.7640.84
62_F89_L0.7460.83
71_N74_S0.7440.82
13_D17_W0.7430.82
75_I98_D0.7340.82
65_R68_A0.7220.81
21_D25_F0.7200.80
21_D24_L0.7030.79
50_L62_F0.7020.79
6_Y87_Q0.6910.78
65_R71_N0.6890.77
59_D62_F0.6880.77
71_N88_I0.6850.77
82_D108_A0.6830.77
27_K30_D0.6760.76
31_A40_T0.6760.76
83_M86_Q0.6750.76
50_L68_A0.6700.75
71_N83_M0.6700.75
53_A66_A0.6660.75
6_Y9_Y0.6650.75
8_N13_D0.6610.74
27_K42_E0.6580.74
8_N11_T0.6550.74
68_A88_I0.6510.73
29_A33_L0.6420.72
22_D42_E0.6420.72
76_V81_I0.6400.72
60_W102_T0.6390.72
51_E89_L0.6280.71
52_A65_R0.6250.70
43_V52_A0.6180.69
46_G106_S0.6100.68
15_Q18_D0.6070.68
35_G74_S0.6070.68
57_G63_S0.6070.68
70_A74_S0.6020.67
39_G56_Q0.5960.67
91_D97_K0.5960.67
23_D27_K0.5920.66
48_Y106_S0.5920.66
88_I99_V0.5810.65
9_Y17_W0.5800.64
19_M97_K0.5750.64
27_K31_A0.5680.63
65_R89_L0.5660.63
75_I117_N0.5610.62
99_V117_N0.5600.62
37_D58_Y0.5580.62
36_E90_S0.5530.61
61_P74_S0.5530.61
44_A106_S0.5510.61
68_A90_S0.5420.59
71_N115_V0.5410.59
48_Y53_A0.5380.59
93_E100_R0.5370.59
24_L45_E0.5330.58
9_Y14_D0.5320.58
62_F84_D0.5270.57
30_D45_E0.5260.57
48_Y84_D0.5250.57
37_D60_W0.5240.57
107_P112_V0.5240.57
52_A56_Q0.5210.56
18_D23_D0.5200.56
87_Q94_V0.5180.56
50_L86_Q0.5180.56
19_M24_L0.5160.56
23_D45_E0.5150.55
7_L11_T0.5120.55
13_D16_G0.5110.55
43_V107_P0.5100.55
88_I104_I0.5060.54
18_D24_L0.5060.54
52_A62_F0.5050.54
49_I111_E0.5050.54
73_A88_I0.5040.54
6_Y18_D0.5030.54
58_Y63_S0.5000.53
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  
1doiA 5 0.9767 99.9 0.422 Contact Map
2piaA 1 0.8372 99.9 0.449 Contact Map
3zyyX 2 0.7752 99.9 0.501 Contact Map
1qoaA 1 0.7442 99.9 0.501 Contact Map
1iueA 1 0.7597 99.9 0.504 Contact Map
1frrA 1 0.7364 99.9 0.505 Contact Map
3wcqA 1 0.7364 99.9 0.509 Contact Map
4itkA 1 0.7829 99.9 0.509 Contact Map
1frdA 1 0.7442 99.9 0.512 Contact Map
1awdA 2 0.7209 99.9 0.512 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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