GREMLIN Database
HYFA - Hydrogenase-4 component A
UniProt: P23481 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11150
Length: 205 (173)
Sequences: 1230 (809)
Seq/√Len: 61.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
15_C18_C3.4261.00
5_V148_L3.1881.00
152_L160_R3.0211.00
68_I97_I2.9701.00
12_C18_C2.6361.00
67_A70_Q2.6191.00
37_L40_A2.4991.00
12_C15_C2.4851.00
176_Q181_E2.4631.00
62_V87_L2.4571.00
174_S177_R2.4081.00
12_C162_C2.1951.00
156_P159_V2.1611.00
25_V151_F2.1331.00
32_Q35_P2.0231.00
6_V179_M1.9801.00
183_Q188_S1.9671.00
86_K99_A1.9491.00
168_R182_K1.9481.00
4_F172_G1.9401.00
15_C162_C1.9011.00
7_A167_L1.8951.00
43_S103_R1.8551.00
179_M182_K1.8521.00
62_V91_V1.8361.00
10_L186_A1.8321.00
31_L35_P1.7841.00
178_Q181_E1.7690.99
6_V182_K1.7650.99
138_G144_V1.7240.99
60_L143_A1.7030.99
21_A161_A1.6410.99
86_K101_G1.6140.99
32_Q39_L1.6070.99
69_S78_N1.5880.99
65_V68_I1.5760.99
63_C88_C1.5550.99
110_Q113_F1.5540.99
7_A50_V1.5050.98
32_Q40_A1.5010.98
63_C82_C1.4980.98
23_S28_T1.4970.98
180_K184_R1.4960.98
18_C162_C1.4210.98
65_V69_S1.4150.97
34_H37_L1.4110.97
70_Q75_I1.4050.97
65_V70_Q1.3860.97
177_R180_K1.3780.97
62_V84_G1.3740.97
181_E185_L1.3480.97
13_T164_N1.3390.96
82_C88_C1.3370.96
35_P38_A1.3210.96
32_Q36_R1.3130.96
175_L180_K1.3070.96
63_C85_C1.2990.96
159_V167_L1.2970.96
35_P39_L1.2960.96
86_K89_A1.2550.95
100_S144_V1.2340.94
103_R106_N1.2220.94
61_Q101_G1.2150.94
185_L190_F1.2070.94
17_T21_A1.1720.93
31_L34_H1.1520.92
4_F190_F1.1480.92
33_Q39_L1.1390.92
32_Q37_L1.1320.91
106_N109_A1.1190.91
27_K144_V1.1130.91
181_E184_R1.1100.90
171_T174_S1.1070.90
82_C85_C1.1060.90
85_C88_C1.1010.90
33_Q40_A1.1010.90
34_H40_A1.0860.89
12_C163_P1.0830.89
33_Q38_A1.0680.89
34_H38_A1.0660.89
131_A134_R1.0640.89
57_A70_Q1.0630.88
5_V9_P1.0590.88
57_A60_L1.0570.88
93_P145_K1.0510.88
178_Q182_K1.0480.88
68_I77_L1.0420.87
13_T19_L0.9970.85
183_Q187_A0.9960.85
3_R72_D0.9940.85
31_L37_L0.9870.84
138_G142_V0.9810.84
26_H151_F0.9710.83
165_Q168_R0.9680.83
34_H39_L0.9660.83
14_G18_C0.9620.83
182_K185_L0.9600.83
187_A190_F0.9600.83
180_K183_Q0.9460.82
79_E100_S0.9390.81
36_R109_A0.9380.81
60_L70_Q0.9260.80
79_E142_V0.9250.80
48_P145_K0.9130.79
13_T163_P0.9120.79
33_Q36_R0.9100.79
14_G162_C0.9040.79
62_V90_V0.8970.78
185_L188_S0.8970.78
48_P166_A0.8920.78
145_K166_A0.8770.77
182_K186_A0.8720.76
36_R40_A0.8690.76
77_L97_I0.8590.75
168_R178_Q0.8550.75
18_C163_P0.8540.75
78_N81_L0.8520.75
72_D75_I0.8490.74
112_V185_L0.8400.74
106_N111_Y0.8360.73
175_L183_Q0.8280.72
45_I185_L0.8270.72
22_C27_K0.8250.72
75_I85_C0.8240.72
152_L157_A0.8210.72
93_P156_P0.8160.71
155_G159_V0.8130.71
31_L40_A0.8120.71
109_A113_F0.8110.71
58_P93_P0.8080.71
50_V148_L0.8070.71
67_A81_L0.7990.70
21_A83_I0.7970.70
87_L90_V0.7900.69
89_A99_A0.7890.69
6_V159_V0.7890.69
89_A143_A0.7870.69
103_R111_Y0.7820.68
70_Q73_D0.7760.68
183_Q189_W0.7720.67
89_A100_S0.7660.67
31_L39_L0.7650.66
86_K95_G0.7550.65
12_C22_C0.7520.65
84_G93_P0.7510.65
65_V71_R0.7480.65
27_K138_G0.7480.65
94_F145_K0.7410.64
99_A140_Q0.7390.64
32_Q38_A0.7380.64
71_R76_Q0.7380.64
53_H76_Q0.7370.64
146_C149_C0.7360.63
68_I75_I0.7330.63
47_A50_V0.7310.63
6_V188_S0.7290.63
26_H29_Q0.7280.63
60_L75_I0.7250.62
58_P145_K0.7130.61
89_A95_G0.7130.61
35_P40_A0.7090.61
64_P88_C0.7070.60
12_C16_N0.7040.60
129_Q181_E0.7020.60
52_H148_L0.7010.60
27_K30_G0.6990.59
87_L91_V0.6950.59
42_T45_I0.6730.57
62_V79_E0.6710.56
13_T182_K0.6710.56
83_I88_C0.6690.56
183_Q190_F0.6660.56
11_W107_A0.6650.56
148_L169_L0.6650.56
83_I93_P0.6630.55
24_D161_A0.6620.55
26_H147_D0.6610.55
17_T171_T0.6570.55
65_V84_G0.6570.55
49_V148_L0.6570.55
25_V152_L0.6500.54
15_C20_A0.6450.53
79_E135_W0.6450.53
14_G22_C0.6450.53
49_V52_H0.6440.53
22_C26_H0.6350.52
26_H93_P0.6340.52
10_L178_Q0.6330.52
43_S155_G0.6320.52
85_C156_P0.6310.52
36_R39_L0.6280.51
67_A71_R0.6220.51
86_K103_R0.6200.51
182_K190_F0.6180.50
76_Q150_D0.6180.50
33_Q37_L0.6160.50
78_N89_A0.6120.50
180_K187_A0.6070.49
24_D164_N0.6070.49
78_N105_V0.6060.49
45_I184_R0.6030.49
106_N110_Q0.6020.49
26_H145_K0.5980.48
103_R109_A0.5950.48
21_A25_V0.5940.48
21_A160_R0.5940.48
178_Q186_A0.5920.47
87_L100_S0.5900.47
60_L68_I0.5900.47
73_D93_P0.5890.47
98_S101_G0.5860.47
67_A73_D0.5850.47
145_K171_T0.5820.46
31_L38_A0.5770.46
17_T161_A0.5740.45
112_V188_S0.5730.45
17_T169_L0.5700.45
178_Q188_S0.5680.45
87_L99_A0.5630.44
148_L188_S0.5600.44
27_K135_W0.5590.44
5_V8_E0.5580.44
56_E66_N0.5560.43
76_Q134_R0.5560.43
65_V81_L0.5550.43
6_V183_Q0.5550.43
155_G178_Q0.5530.43
142_V145_K0.5500.43
65_V73_D0.5490.43
4_F189_W0.5460.42
179_M187_A0.5450.42
23_S29_Q0.5450.42
20_A30_G0.5400.42
97_I100_S0.5380.41
58_P67_A0.5380.41
29_Q153_P0.5340.41
38_A184_R0.5320.41
4_F56_E0.5300.40
12_C187_A0.5280.40
45_I155_G0.5260.40
23_S26_H0.5250.40
41_K107_A0.5210.39
78_N83_I0.5200.39
179_M185_L0.5180.39
77_L104_P0.5170.39
15_C163_P0.5140.39
37_L42_T0.5110.38
13_T16_N0.5110.38
100_S138_G0.5090.38
84_G88_C0.5070.38
67_A93_P0.5060.38
157_A160_R0.5060.38
186_A189_W0.5050.38
145_K169_L0.5030.38
75_I91_V0.5020.37
4_F7_A0.5020.37
18_C189_W0.5020.37
38_A105_V0.5010.37
138_G141_T0.5010.37
68_I73_D0.5000.37
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  
1ti6B 2 0.8049 100 0.452 Contact Map
2ivfB 1 0.8195 100 0.457 Contact Map
2vpzB 2 0.8146 100 0.499 Contact Map
1h0hB 1 0.8146 100 0.519 Contact Map
1kqfB 3 0.8195 100 0.53 Contact Map
1q16B 2 0.8195 100 0.581 Contact Map
4z3xE 2 0.7512 99.9 0.646 Contact Map
3mm5B 2 0.8049 99.7 0.737 Contact Map
3i9v9 1 0.6146 99.3 0.801 Contact Map
3or1B 2 0.9366 99.3 0.801 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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