GREMLIN Database
CYBH - Probable Ni/Fe-hydrogenase 1 B-type cytochrome subunit
UniProt: P0AAM1 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10470
Length: 235 (189)
Sequences: 1888 (1371)
Seq/√Len: 99.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
31_V66_A5.1131.00
12_Y221_Y3.4421.00
142_F187_G3.0531.00
10_S221_Y2.9801.00
139_M194_F2.3201.00
70_F140_S2.2571.00
182_S185_R2.2471.00
33_M195_V2.2081.00
19_R220_G2.1721.00
23_W26_V2.1551.00
206_D212_T2.1081.00
142_F183_W2.1041.00
25_T73_V2.0781.00
79_Y83_V2.0441.00
74_L140_S2.0391.00
21_W73_V2.0341.00
30_A34_V2.0201.00
80_W84_G1.8991.00
74_L144_I1.8881.00
17_P80_W1.8811.00
28_C70_F1.8811.00
71_T144_I1.8211.00
33_M188_M1.8181.00
24_L73_V1.7561.00
95_P134_F1.7511.00
62_I65_S1.7161.00
18_V80_W1.6751.00
26_V30_A1.6391.00
140_S191_I1.6311.00
143_M187_G1.6211.00
32_L66_A1.6091.00
21_W76_M1.6041.00
17_P76_M1.6021.00
106_W110_R1.5951.00
132_A194_F1.5911.00
95_P130_Q1.5861.00
189_W193_A1.5781.00
25_T70_F1.5721.00
150_L181_H1.5421.00
33_M192_G1.5401.00
71_T148_F1.5281.00
199_V202_A1.5161.00
18_V88_S1.5061.00
103_Q107_Y1.4911.00
29_M191_I1.4861.00
95_P104_G1.4721.00
135_G194_F1.4691.00
16_A20_I1.4591.00
212_T216_T1.4451.00
107_Y110_R1.4411.00
215_S219_N1.4411.00
202_A214_I1.3840.99
39_I42_P1.3630.99
85_N88_S1.3560.99
105_V131_A1.3560.99
15_E80_W1.3340.99
32_L70_F1.3250.99
192_G196_I1.3210.99
202_A205_E1.2960.99
40_G185_R1.2770.99
20_I24_L1.2740.99
206_D215_S1.2600.99
195_V199_V1.2480.99
108_E127_P1.2470.99
68_M72_V1.2290.99
133_M194_F1.2210.99
129_A133_M1.2170.99
182_S186_L1.2140.99
181_H185_R1.2110.99
149_A180_I1.2050.99
64_F156_Q1.1980.98
125_H129_A1.1920.98
37_Y188_M1.1890.98
179_D183_W1.1780.98
196_I200_Y1.1680.98
93_I130_Q1.1680.98
29_M195_V1.1630.98
28_C69_V1.1590.98
110_R116_A1.1490.98
14_F125_H1.1190.98
42_P56_M1.1180.98
193_A197_G1.1030.97
178_M181_H1.1020.97
67_G70_F1.0980.97
96_V104_G1.0890.97
151_Y177_S1.0710.97
114_F117_K1.0680.97
26_V199_V1.0630.97
200_Y204_R1.0600.97
41_K67_G1.0500.97
177_S180_I1.0480.96
77_R81_A1.0470.96
178_M182_S1.0450.96
15_E88_S1.0420.96
87_Y92_F1.0400.96
205_E213_V1.0380.96
64_F68_M1.0380.96
111_W118_R1.0370.96
61_L65_S1.0230.96
129_A213_V1.0180.96
32_L36_G1.0140.96
38_F42_P1.0060.96
139_M190_L0.9960.95
23_W218_V0.9840.95
136_Y190_L0.9790.95
176_N179_D0.9780.95
31_V35_T0.9770.95
123_I222_R0.9760.95
108_E111_W0.9720.95
58_Y62_I0.9520.94
74_L137_F0.9500.94
142_F145_I0.9480.94
177_S181_H0.9270.93
132_A135_G0.9200.93
131_A135_G0.9190.93
35_T66_A0.9190.93
21_W25_T0.9180.93
204_R208_M0.9070.92
206_D209_S0.9010.92
104_G127_P0.9010.92
80_W88_S0.8970.92
95_P105_V0.8950.92
109_I113_L0.8930.92
124_G222_R0.8930.92
27_L31_V0.8920.92
64_F151_Y0.8890.92
28_C31_V0.8890.92
187_G190_L0.8880.92
82_F86_R0.8720.91
72_V75_L0.8690.91
35_T59_I0.8660.91
151_Y181_H0.8630.90
33_M37_Y0.8620.90
82_F106_W0.8520.90
199_V214_I0.8510.90
153_E156_Q0.8470.90
43_L56_M0.8450.89
78_I82_F0.8380.89
14_F77_R0.8340.89
65_S68_M0.8330.89
84_G87_Y0.8260.88
9_V141_V0.8240.88
214_I217_M0.8220.88
12_Y15_E0.8130.88
64_F180_I0.8090.87
186_L190_L0.8060.87
122_D127_P0.8050.87
111_W119_P0.8040.87
191_I195_V0.8030.87
111_W117_K0.8030.87
215_S218_V0.7990.87
57_G181_H0.7980.87
107_Y203_L0.7920.86
105_V128_I0.7850.86
28_C66_A0.7820.85
105_V108_E0.7810.85
185_R189_W0.7810.85
36_G188_M0.7770.85
212_T215_S0.7730.85
40_G45_S0.7710.85
167_V176_N0.7710.85
111_W120_S0.7680.84
150_L177_S0.7670.84
147_G184_H0.7650.84
45_S113_L0.7640.84
136_Y194_F0.7590.84
17_P84_G0.7470.83
41_K45_S0.7460.83
29_M188_M0.7450.83
16_A72_V0.7450.83
103_Q106_W0.7430.82
123_I138_L0.7420.82
79_Y200_Y0.7420.82
133_M202_A0.7410.82
213_V216_T0.7380.82
26_V195_V0.7330.82
25_T67_G0.7330.82
82_F97_W0.7300.81
38_F59_I0.7280.81
69_V73_V0.7270.81
33_M189_W0.7260.81
165_Y168_E0.7230.81
15_E84_G0.7210.81
94_V97_W0.7180.80
81_A93_I0.7180.80
128_I194_F0.7150.80
151_Y154_H0.7150.80
107_Y111_W0.7080.79
203_L207_I0.7000.79
151_Y155_S0.6900.78
108_E213_V0.6890.77
151_Y180_I0.6850.77
80_W219_N0.6760.76
38_F43_L0.6730.76
13_V204_R0.6720.76
10_S223_S0.6720.76
215_S223_S0.6720.76
80_W125_H0.6690.75
21_W74_L0.6670.75
39_I60_R0.6630.75
146_T150_L0.6630.75
87_Y124_G0.6590.74
67_G77_R0.6570.74
152_S180_I0.6440.73
14_F124_G0.6350.72
202_A206_D0.6350.72
140_S190_L0.6320.71
32_L219_N0.6310.71
17_P21_W0.6300.71
29_M33_M0.6220.70
148_F159_I0.6200.70
78_I81_A0.6180.69
136_Y140_S0.6170.69
35_T54_F0.6170.69
151_Y183_W0.6140.69
77_R125_H0.6130.69
24_L69_V0.6110.69
84_G88_S0.6090.68
141_V144_I0.6070.68
37_Y57_G0.6050.68
41_K185_R0.6020.67
148_F167_V0.6020.67
132_A136_Y0.6010.67
32_L65_S0.6010.67
19_R218_V0.6010.67
153_E178_M0.6010.67
70_F74_L0.6000.67
19_R23_W0.5980.67
70_F144_I0.5940.66
11_H224_H0.5930.66
30_A33_M0.5920.66
205_E209_S0.5900.66
24_L107_Y0.5890.66
107_Y131_A0.5890.66
110_R114_F0.5880.66
152_S155_S0.5870.66
139_M143_M0.5830.65
136_Y197_G0.5800.65
29_M139_M0.5770.64
138_L195_V0.5750.64
13_V124_G0.5750.64
183_W186_L0.5740.64
136_Y139_M0.5730.64
212_T223_S0.5730.64
75_L104_G0.5690.63
150_L188_M0.5680.63
32_L67_G0.5660.63
81_A84_G0.5640.62
58_Y65_S0.5640.62
37_Y192_G0.5630.62
12_Y17_P0.5620.62
42_P77_R0.5610.62
203_L214_I0.5600.62
60_R156_Q0.5570.61
124_G129_A0.5540.61
64_F153_E0.5510.61
18_V81_A0.5490.60
146_T184_H0.5470.60
166_V217_M0.5470.60
80_W201_M0.5460.60
174_G178_M0.5450.60
71_T195_V0.5410.59
45_S182_S0.5400.59
103_Q117_K0.5400.59
72_V145_I0.5390.59
38_F44_P0.5390.59
111_W114_F0.5380.59
94_V134_F0.5350.58
11_H192_G0.5350.58
60_R64_F0.5290.58
27_L30_A0.5280.57
37_Y189_W0.5270.57
108_E121_A0.5270.57
62_I167_V0.5260.57
36_G57_G0.5150.56
209_S212_T0.5140.55
17_P72_V0.5130.55
106_W109_I0.5110.55
14_F129_A0.5100.55
55_Y58_Y0.5100.55
18_V84_G0.5070.54
106_W179_D0.5050.54
17_P85_N0.5030.54
80_W85_N0.5000.53
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  
4gd3A 2 0.7489 100 0.342 Contact Map
1kqfC 3 0.8468 100 0.501 Contact Map
3cx5C 2 0.817 90 0.914 Contact Map
2qjyA 2 0.8383 89.9 0.914 Contact Map
1pp9C 2 0.7745 86.1 0.92 Contact Map
4ogqA 2 0.5787 62.2 0.935 Contact Map
4o6yA 2 0.6383 38.5 0.943 Contact Map
1q16C 2 0.7489 21.5 0.95 Contact Map
4cbcA 3 0.3319 4.8 0.963 Contact Map
3vouA 4 0.5277 4.3 0.964 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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