GREMLIN Database
YDHY - Uncharacterized ferredoxin-like protein YdhY
UniProt: P0AAL6 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13959
Length: 208 (157)
Sequences: 1092 (640)
Seq/√Len: 51.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
68_C74_C4.3181.00
68_C193_C3.9941.00
68_C71_C3.8961.00
61_L185_L3.5041.00
71_C74_C3.3531.00
143_Q146_E3.3291.00
60_V203_W3.2041.00
71_C193_C3.1801.00
57_P202_E3.1681.00
134_V161_A3.1151.00
140_I171_A3.0801.00
74_C193_C2.8561.00
63_T198_L2.7891.00
160_S175_T2.7451.00
190_A198_L2.6711.00
163_T180_S2.6641.00
79_T84_G2.6481.00
58_K127_K2.5181.00
77_S192_A2.2741.00
69_T195_T2.1711.00
92_R95_I2.0471.00
160_S173_V2.0081.00
202_E205_D1.9130.99
129_P132_M1.8870.99
77_S188_E1.7990.99
173_V180_S1.7910.99
134_V165_A1.7900.99
63_T120_A1.5640.98
174_N181_S1.5270.97
135_C156_C1.4150.95
99_Y103_D1.4080.95
73_R76_I1.3720.95
163_T173_V1.3620.94
182_K194_P1.3570.94
160_S163_T1.3510.94
174_N177_S1.3370.94
125_Q149_I1.3180.93
140_I151_V1.3090.93
122_T185_L1.3050.93
54_I145_K1.2780.92
135_C162_C1.2540.92
73_R80_N1.2530.92
82_N184_V1.2470.91
155_R160_S1.2400.91
156_C162_C1.2370.91
70_G74_C1.2130.90
133_N175_T1.2040.90
144_Q148_C1.1930.89
54_I129_P1.1760.89
99_Y114_G1.1700.88
80_N192_A1.1550.88
81_F188_E1.1250.86
70_G193_C1.1040.85
70_G197_A1.1030.85
94_K97_R1.1030.85
47_D50_T1.0770.84
73_R125_Q1.0720.84
150_T187_G1.0690.83
45_D48_S1.0650.83
172_T181_S1.0600.83
132_M140_I1.0560.83
143_Q149_I1.0550.83
47_D52_G1.0430.82
130_Q165_A1.0350.81
95_I99_Y1.0300.81
50_T53_L0.9790.78
86_V89_F0.9720.77
171_A202_E0.9670.77
95_I101_F0.9660.77
164_T174_N0.9600.76
112_L115_D0.9430.75
153_H187_G0.9410.75
124_R140_I0.9410.75
180_S184_V0.9380.75
96_H101_F0.9340.74
82_N118_Y0.9330.74
97_R101_F0.9270.74
152_D155_R0.9240.73
83_D174_N0.9160.73
151_V171_A0.9160.73
76_I80_N0.9060.72
47_D54_I0.9060.72
111_G115_D0.9040.72
77_S81_F0.9010.72
171_A206_I0.8940.71
137_I154_K0.8890.70
130_Q171_A0.8670.69
97_R169_M0.8660.68
63_T122_T0.8650.68
48_S53_L0.8650.68
142_W146_E0.8540.67
163_T178_K0.8520.67
186_C189_C0.8470.67
73_R195_T0.8380.66
67_R170_M0.8380.66
46_I128_E0.8120.63
124_R170_M0.8100.63
48_S51_V0.8090.63
172_T180_S0.8030.63
59_G146_E0.8020.62
144_Q187_G0.7900.61
66_A161_A0.7900.61
120_A151_V0.7820.61
129_P190_A0.7790.60
109_G112_L0.7750.60
137_I140_I0.7750.60
87_G90_F0.7740.60
92_R96_H0.7690.59
56_T204_K0.7680.59
122_T168_W0.7660.59
110_G113_Y0.7660.59
91_S94_K0.7650.59
58_K142_W0.7630.59
46_I55_N0.7580.58
70_G81_F0.7570.58
45_D50_T0.7550.58
73_R194_P0.7540.58
150_T184_V0.7520.58
159_C165_A0.7510.57
46_I125_Q0.7460.57
63_T157_I0.7430.57
97_R102_G0.7310.55
139_A148_C0.7300.55
51_V55_N0.7280.55
158_G182_K0.7270.55
171_A181_S0.7190.54
133_N151_V0.7160.54
45_D52_G0.7130.54
128_E197_A0.7110.53
53_L113_Y0.7070.53
83_D181_S0.7060.53
51_V128_E0.6940.52
134_V171_A0.6870.51
128_E133_N0.6850.51
135_C158_G0.6840.51
134_V140_I0.6830.50
147_G182_K0.6820.50
148_C187_G0.6800.50
48_S115_D0.6710.49
128_E176_E0.6640.48
83_D153_H0.6630.48
145_K187_G0.6630.48
137_I159_C0.6620.48
130_Q140_I0.6590.48
87_G165_A0.6590.48
81_F93_I0.6550.48
93_I100_F0.6490.47
127_K190_A0.6470.47
70_G170_M0.6460.47
145_K150_T0.6390.46
109_G114_G0.6370.46
124_R130_Q0.6280.45
189_C193_C0.6270.45
65_R117_N0.6250.44
61_L122_T0.6240.44
135_C159_C0.6230.44
53_L191_N0.6190.44
184_V187_G0.6160.44
66_A111_G0.6160.44
151_V161_A0.6140.43
158_G162_C0.6140.43
45_D49_G0.6100.43
59_G148_C0.6060.42
46_I54_I0.6050.42
56_T138_G0.6040.42
93_I101_F0.6040.42
50_T154_K0.6030.42
92_R97_R0.6010.42
55_N145_K0.6010.42
61_L120_A0.6000.42
161_A184_V0.5920.41
121_D185_L0.5900.41
122_T140_I0.5860.40
156_C159_C0.5850.40
47_D51_V0.5800.40
51_V54_I0.5800.40
82_N161_A0.5790.40
174_N182_K0.5760.39
145_K205_D0.5730.39
160_S178_K0.5710.39
92_R101_F0.5680.39
202_E206_I0.5650.38
183_C189_C0.5630.38
61_L168_W0.5620.38
90_F111_G0.5620.38
163_T190_A0.5620.38
67_R152_D0.5620.38
175_T178_K0.5620.38
51_V112_L0.5610.38
60_V133_N0.5600.38
49_G204_K0.5590.38
150_T199_K0.5560.38
118_Y195_T0.5540.37
154_K157_I0.5530.37
136_P162_C0.5470.37
121_D124_R0.5460.37
149_I159_C0.5460.37
60_V163_T0.5450.36
111_G114_G0.5390.36
45_D53_L0.5390.36
152_D165_A0.5380.36
48_S191_N0.5360.36
72_H136_P0.5340.35
50_T54_I0.5340.35
121_D176_E0.5340.35
149_I201_I0.5340.35
50_T57_P0.5340.35
125_Q182_K0.5340.35
45_D67_R0.5330.35
60_V160_S0.5260.35
45_D117_N0.5250.35
64_Q169_M0.5250.35
168_W206_I0.5240.34
68_C194_P0.5220.34
56_T145_K0.5180.34
62_V93_I0.5180.34
59_G171_A0.5170.34
84_G200_I0.5160.34
151_V181_S0.5140.34
48_S52_G0.5130.33
46_I51_V0.5120.33
51_V196_G0.5110.33
67_R115_D0.5100.33
103_D145_K0.5090.33
67_R195_T0.5070.33
126_C131_C0.5060.33
126_C166_C0.5060.33
131_C166_C0.5060.33
123_C131_C0.5060.33
123_C126_C0.5060.33
123_C166_C0.5060.33
140_I174_N0.5050.33
88_T195_T0.5020.32
134_V170_M0.5020.32
69_T74_C0.5000.32
52_G157_I0.5000.32
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  
2ivfB 1 0.7356 100 0.477 Contact Map
1kqfB 3 0.851 100 0.487 Contact Map
1ti6B 2 0.6779 100 0.489 Contact Map
1h0hB 1 0.726 100 0.506 Contact Map
2vpzB 2 0.6779 100 0.538 Contact Map
1q16B 2 0.7452 100 0.566 Contact Map
4z3xE 2 0.6202 100 0.617 Contact Map
3mm5B 2 0.9087 99.7 0.736 Contact Map
3gyxB 1 0.2933 99.4 0.787 Contact Map
2c42A 2 0.9183 99.4 0.792 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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