GREMLIN Database
CCME - Cytochrome c-type biogenesis protein CcmE
UniProt: P69490 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12055
Length: 159 (140)
Sequences: 1170 (728)
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
67_M90_S3.9821.00
42_E47_K3.9741.00
84_I109_V3.8521.00
67_M83_T3.7851.00
3_I6_K3.5601.00
112_Q125_E2.9321.00
104_R107_Q2.5681.00
140_E144_E2.4201.00
116_E122_L2.4021.00
59_R124_K2.2221.00
80_V99_L2.2131.00
83_T90_S2.1381.00
20_A24_G2.1131.00
79_K96_E2.0301.00
141_K145_A2.0131.00
72_Q81_T1.9661.00
65_M87_A1.9611.00
83_T92_D1.8541.00
99_L126_V1.8341.00
104_R109_V1.7790.99
144_E149_R1.7490.99
41_G89_G1.6590.99
30_L34_I1.6430.99
43_I60_L1.6300.99
30_L35_D1.6240.99
88_E146_N1.6160.99
114_E124_K1.5550.99
74_D77_S1.5490.99
57_G114_E1.4800.98
116_E120_H1.4650.98
43_I62_V1.4420.98
81_T94_S1.4410.98
16_L20_A1.4330.98
24_G28_Y1.4120.97
144_E148_R1.3810.97
143_M147_H1.3690.97
139_V143_M1.3590.97
73_R98_I1.3300.96
139_V142_A1.2980.96
28_Y32_S1.2940.96
94_S120_H1.2520.95
59_R114_E1.2350.94
81_T92_D1.2310.94
85_Y89_G1.2310.94
40_P63_G1.2080.94
142_A146_N1.1980.93
65_M143_M1.1840.93
35_D112_Q1.1570.92
23_I27_L1.1520.92
102_L130_H1.1420.92
144_E147_H1.1330.91
41_G45_Y1.1320.91
40_P130_H1.1290.91
68_P106_G1.1250.91
17_A21_L1.1190.91
141_K144_E1.0960.90
30_L36_L1.0880.90
71_V80_V1.0750.89
21_L31_R1.0670.89
40_P131_D1.0660.89
41_G86_D1.0600.88
145_A148_R1.0460.88
102_L132_E1.0370.87
59_R112_Q1.0360.87
146_N149_R1.0330.87
11_I15_V1.0220.86
63_G130_H1.0180.86
145_A149_R1.0170.86
38_Y60_L1.0160.86
30_L33_N1.0010.85
131_D136_P1.0010.85
128_A136_P0.9990.85
79_K94_S0.9950.85
27_L104_R0.9880.84
108_G137_P0.9880.84
35_D58_Q0.9680.83
60_L121_I0.9630.83
93_V109_V0.9400.81
23_I28_Y0.9350.81
118_G122_L0.9350.81
15_V77_S0.9200.80
62_V121_I0.9130.79
40_P102_L0.9100.79
86_D127_L0.9020.79
65_M108_G0.9000.78
6_K10_W0.8980.78
128_A131_D0.8940.78
36_L112_Q0.8670.76
67_M109_V0.8520.75
107_Q139_V0.8410.74
63_G102_L0.8340.73
35_D121_I0.8330.73
102_L131_D0.8300.73
10_W13_C0.8230.72
108_G130_H0.8180.72
25_L29_A0.8170.71
37_F108_G0.8060.70
80_V126_V0.8000.70
73_R80_V0.7990.70
135_T140_E0.7960.69
107_Q133_N0.7960.69
27_L34_I0.7930.69
9_L23_I0.7880.69
41_G88_E0.7870.69
101_D123_A0.7860.68
63_G131_D0.7790.68
100_P127_L0.7680.67
74_D79_K0.7620.66
63_G132_E0.7610.66
45_Y68_P0.7530.65
128_A135_T0.7450.64
88_E144_E0.7450.64
96_E114_E0.7380.64
63_G108_G0.7340.63
40_P132_E0.7330.63
46_G73_R0.7240.62
37_F97_G0.7220.62
14_A60_L0.7190.62
28_Y34_I0.7190.62
24_G36_L0.7160.61
39_T42_E0.7130.61
20_A27_L0.7110.61
106_G115_L0.7070.60
35_D59_R0.7050.60
36_L110_V0.7020.60
63_G127_L0.6910.59
76_N96_E0.6810.57
8_R132_E0.6790.57
32_S36_L0.6790.57
40_P65_M0.6790.57
141_K148_R0.6770.57
36_L61_R0.6760.57
95_Y123_A0.6760.57
105_E127_L0.6720.56
71_V126_V0.6710.56
34_I110_V0.6680.56
66_V102_L0.6650.56
32_S46_G0.6590.55
94_S122_L0.6560.55
39_T146_N0.6540.54
70_S90_S0.6500.54
19_L23_I0.6490.54
111_V126_V0.6450.53
44_L119_N0.6430.53
19_L27_L0.6350.52
9_L13_C0.6320.52
71_V74_D0.6300.52
19_L28_Y0.6300.52
140_E149_R0.6250.51
42_E59_R0.6220.51
43_I47_K0.6220.51
117_K120_H0.6210.51
111_V123_A0.6170.50
130_H135_T0.6160.50
81_T120_H0.6150.50
84_I111_V0.6090.49
14_A80_V0.6070.49
62_V93_V0.6070.49
102_L128_A0.6020.48
142_A145_A0.6000.48
12_A43_I0.5990.48
7_N12_A0.5980.48
87_A143_M0.5920.47
84_I120_H0.5910.47
27_L96_E0.5880.47
102_L136_P0.5870.47
14_A94_S0.5850.47
14_A21_L0.5840.46
92_D121_I0.5830.46
86_D105_E0.5780.46
76_N79_K0.5740.45
75_P78_L0.5720.45
32_S43_I0.5670.45
112_Q141_K0.5670.45
20_A23_I0.5630.44
32_S39_T0.5620.44
108_G143_M0.5610.44
18_G98_I0.5580.44
130_H133_N0.5580.44
40_P84_I0.5580.44
105_E132_E0.5570.43
44_L75_P0.5550.43
74_D80_V0.5550.43
62_V111_V0.5520.43
101_D128_A0.5500.43
131_D135_T0.5450.42
81_T96_E0.5430.42
47_K125_E0.5410.42
15_V33_N0.5400.42
99_L123_A0.5400.42
71_V88_E0.5390.41
18_G30_L0.5380.41
118_G121_I0.5350.41
41_G87_A0.5340.41
65_M130_H0.5330.41
71_V106_G0.5320.41
112_Q124_K0.5320.41
40_P127_L0.5280.40
18_G112_Q0.5250.40
117_K124_K0.5240.40
14_A62_V0.5220.40
28_Y31_R0.5200.39
124_K147_H0.5180.39
76_N145_A0.5160.39
95_Y101_D0.5140.39
82_F113_G0.5070.38
6_K13_C0.5070.38
91_V118_G0.5040.38
17_A114_E0.5030.37
105_E131_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  
1sr3A 1 0.717 100 0.239 Contact Map
1j6qA 1 0.6226 100 0.249 Contact Map
2kctA 1 0.5283 99.9 0.495 Contact Map
4gn4B 1 0.5283 47.5 0.93 Contact Map
3nemA 2 0.7044 47 0.93 Contact Map
1x54A 2 0.7044 45.5 0.931 Contact Map
1n9wA 2 0.6478 35.8 0.935 Contact Map
3e0jA 1 0.7358 34 0.935 Contact Map
1wydA 2 0.6981 32.3 0.936 Contact Map
4owtB 1 0.3711 28.3 0.938 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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