GREMLIN Database
HEMG - Protoporphyrinogen IX dehydrogenase [menaquinone]
UniProt: P0ACB4 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11485
Length: 181 (160)
Sequences: 851 (663)
Seq/√Len: 52.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
33_D48_Y5.7311.00
54_G85_Y5.6681.00
52_V171_I4.1711.00
20_Y165_A3.3941.00
11_D135_D3.0231.00
24_E169_R2.6571.00
50_R81_P2.4721.00
85_Y122_I2.3721.00
56_S63_H2.3641.00
17_I87_V2.3531.00
24_E165_A2.3301.00
5_I18_A2.2371.00
11_D58_R2.2081.00
89_L126_L2.1961.00
44_Q47_N2.0861.00
62_Y86_S2.0821.00
15_R19_S2.0571.00
83_A167_F1.9321.00
52_V83_A1.8900.99
76_R80_M1.8820.99
22_A34_V1.8400.99
160_D163_Q1.7560.99
62_Y66_F1.7140.99
21_L168_A1.7060.99
45_W69_F1.6810.99
13_Q157_V1.6490.98
51_V76_R1.6270.98
6_L37_V1.6140.98
137_F140_K1.6020.98
83_A171_I1.5990.98
2_K49_D1.5880.98
53_I66_F1.5640.98
10_R58_R1.5220.97
8_S63_H1.5000.97
36_N39_R1.4960.97
86_S119_C1.4610.97
51_V80_M1.4350.96
166_N170_E1.3860.95
53_I70_V1.3810.95
60_G126_L1.3790.95
13_Q125_A1.3390.94
16_E157_V1.3350.94
55_A63_H1.3320.94
24_E168_A1.3000.93
37_V66_F1.3000.93
74_A78_N1.2960.93
25_L172_A1.2650.92
58_R121_V1.2640.92
8_S55_A1.2540.92
89_L124_G1.2420.92
3_T50_R1.2410.92
84_F116_P1.2140.91
60_G104_Y1.2120.91
10_R63_H1.1780.89
6_L66_F1.1740.89
83_A118_R1.1730.89
58_R88_N1.1660.89
162_E165_A1.1590.89
20_Y23_S1.1560.89
17_I161_W1.1350.88
23_S27_E1.1330.88
18_A85_Y1.1280.87
40_I45_W1.1250.87
8_S66_F1.1200.87
7_F15_R1.1070.86
13_Q159_T1.1060.86
159_T164_V1.0970.86
11_D131_Y1.0900.85
55_A66_F1.0870.85
27_E46_E1.0850.85
45_W80_M1.0690.84
3_T30_I1.0580.84
20_Y24_E1.0230.82
52_V172_A1.0120.81
10_R56_S1.0110.81
58_R135_D1.0060.80
82_S117_D1.0040.80
133_W137_F0.9880.79
125_A130_R0.9860.79
17_I159_T0.9840.79
82_S114_W0.9780.79
50_R171_I0.9740.78
98_T101_T0.9630.77
135_D143_M0.9500.76
100_Q103_S0.9470.76
11_D88_N0.9440.76
122_I164_V0.9410.76
132_R137_F0.9390.76
56_S83_A0.9310.75
122_I167_F0.9180.74
159_T167_F0.9170.74
16_E125_A0.9140.74
84_F141_L0.9070.73
78_N115_R0.8970.72
67_Q111_N0.8930.72
19_S34_V0.8930.72
2_K31_Q0.8800.71
31_Q169_R0.8740.70
165_A169_R0.8660.70
70_V78_N0.8640.69
4_L48_Y0.8560.69
90_V126_L0.8460.68
54_G136_R0.8450.68
89_L142_I0.8420.67
101_T105_A0.8360.67
87_V123_A0.8280.66
13_Q16_E0.8210.65
67_Q71_K0.8150.65
20_Y161_W0.8110.64
26_K31_Q0.8000.63
140_K144_K0.7970.63
139_I145_M0.7920.63
44_Q53_I0.7920.63
38_H65_A0.7920.63
59_Y64_S0.7860.62
69_F73_H0.7840.62
7_F18_A0.7810.61
19_S23_S0.7760.61
54_G122_I0.7690.60
120_A170_E0.7640.60
91_A123_A0.7610.59
126_L131_Y0.7590.59
120_A163_Q0.7590.59
22_A26_K0.7530.59
139_I142_I0.7470.58
129_P135_D0.7460.58
40_I68_E0.7450.58
47_N52_V0.7410.57
6_L36_N0.7340.57
131_Y164_V0.7330.57
11_D129_P0.7320.57
110_M173_H0.7320.57
37_V69_F0.7250.56
55_A83_A0.7210.55
77_L82_S0.7160.55
40_I69_F0.7110.54
59_Y138_M0.7020.53
39_R173_H0.6990.53
107_K110_M0.6930.52
35_A48_Y0.6930.52
56_S171_I0.6900.52
15_R23_S0.6860.52
92_R139_I0.6840.52
139_I146_S0.6750.51
91_A158_Y0.6710.50
90_V103_S0.6690.50
25_L30_I0.6670.50
74_A79_S0.6660.50
6_L121_V0.6630.49
78_N82_S0.6570.49
169_R173_H0.6570.49
72_K79_S0.6520.48
18_A62_Y0.6460.48
21_L24_E0.6450.47
116_P161_W0.6440.47
22_A136_R0.6410.47
93_K96_K0.6400.47
129_P137_F0.6380.47
13_Q131_Y0.6310.46
76_R79_S0.6240.45
18_A52_V0.6240.45
84_F108_F0.6240.45
23_S51_V0.6230.45
18_A50_R0.6220.45
128_Y158_Y0.6190.45
56_S167_F0.6190.45
127_R130_R0.6170.45
40_I44_Q0.6130.44
27_E168_A0.6120.44
105_A112_S0.6110.44
23_S165_A0.6110.44
75_T109_L0.6100.44
64_S162_E0.6100.44
99_P162_E0.6050.43
10_R127_R0.6050.43
75_T78_N0.6050.43
45_W48_Y0.6030.43
128_Y142_I0.6030.43
11_D125_A0.6020.43
23_S26_K0.6010.43
26_K95_E0.6010.43
88_N159_T0.5980.43
107_K133_W0.5970.42
129_P139_I0.5960.42
58_R87_V0.5950.42
104_Y109_L0.5940.42
36_N173_H0.5940.42
23_S76_R0.5870.41
58_R89_L0.5850.41
143_M146_S0.5840.41
45_W51_V0.5830.41
73_H77_L0.5810.41
49_D80_M0.5810.41
67_Q162_E0.5780.41
162_E166_N0.5740.40
163_Q166_N0.5720.40
88_N135_D0.5700.40
157_V167_F0.5680.40
34_V169_R0.5680.40
128_Y164_V0.5670.39
9_T64_S0.5640.39
62_Y122_I0.5610.39
75_T110_M0.5590.39
30_I49_D0.5580.39
75_T79_S0.5570.38
136_R140_K0.5560.38
46_E76_R0.5540.38
88_N131_Y0.5530.38
139_I143_M0.5510.38
30_I48_Y0.5500.38
74_A170_E0.5440.37
123_A161_W0.5430.37
166_N169_R0.5400.37
5_I20_Y0.5400.37
65_A81_P0.5380.37
83_A119_C0.5380.37
59_Y143_M0.5360.36
90_V121_V0.5350.36
127_R157_V0.5350.36
3_T32_A0.5320.36
44_Q48_Y0.5320.36
25_L29_G0.5270.35
103_S106_R0.5270.35
62_Y119_C0.5240.35
39_R47_N0.5230.35
3_T15_R0.5230.35
168_A172_A0.5210.35
86_S171_I0.5210.35
132_R138_M0.5210.35
24_E74_A0.5170.35
57_I120_A0.5160.34
14_T124_G0.5160.34
30_I172_A0.5140.34
90_V93_K0.5120.34
128_Y167_F0.5100.34
124_G160_D0.5040.33
19_S32_A0.5040.33
25_L79_S0.5030.33
58_R130_R0.5020.33
88_N124_G0.5000.33
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  
1yobA 1 0.9337 99.8 0.653 Contact Map
1ykgA 1 0.779 99.8 0.654 Contact Map
1cznA 1 0.9227 99.7 0.659 Contact Map
2wc1A 1 0.9337 99.7 0.661 Contact Map
1oboA 1 0.9171 99.7 0.661 Contact Map
4h2dA 1 0.8232 99.7 0.663 Contact Map
2hnaA 1 0.7845 99.7 0.665 Contact Map
1ag9A 2 0.9448 99.7 0.665 Contact Map
1bvyF 1 0.8066 99.7 0.665 Contact Map
1f4pA 1 0.7845 99.7 0.668 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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