GREMLIN Database
Ubiq_cyt_C_chap - Ubiquinol-cytochrome C chaperone
PFAM: PF03981 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 141 (137)
Sequences: 6468 (4711)
Seq/√Len: 402.5
META: 0.853

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
89_D120_R3.5871.00
30_E131_L2.8121.00
133_A138_R2.7211.00
25_R123_A2.6161.00
39_Q43_D2.5561.00
25_R82_D2.5341.00
18_L119_V2.4471.00
28_R82_D2.4091.00
13_F17_V2.2301.00
59_G62_S2.2011.00
123_A127_A2.1291.00
66_R69_K2.0291.00
89_D117_A2.0071.00
5_V15_M1.9241.00
93_A116_A1.8841.00
130_P133_A1.8691.00
62_S66_R1.8661.00
19_H118_Y1.8041.00
96_L119_V1.7661.00
20_L45_F1.7531.00
76_G99_N1.6701.00
21_F78_L1.6141.00
26_R30_E1.6131.00
93_A113_A1.5941.00
14_D77_R1.5531.00
100_V115_L1.5431.00
68_K72_E1.5291.00
122_A125_A1.5181.00
81_Y95_A1.5151.00
124_A128_A1.4821.00
89_D93_A1.4771.00
45_F49_M1.4771.00
29_A127_A1.4771.00
79_A83_A1.4721.00
77_R81_Y1.4441.00
76_G98_R1.4411.00
21_F82_D1.4291.00
62_S65_K1.4181.00
67_M70_M1.4071.00
107_P112_A1.3741.00
4_G111_A1.3641.00
21_F25_R1.3271.00
8_T11_G1.3011.00
88_D91_A1.2931.00
93_A112_A1.2701.00
47_A51_D1.2591.00
48_D52_N1.2581.00
9_V56_M1.2381.00
108_D111_A1.1861.00
18_L23_V1.1751.00
39_Q42_F1.1741.00
28_R78_L1.1671.00
32_E35_R1.1671.00
83_A87_A1.1541.00
25_R86_A1.1521.00
76_G80_A1.1451.00
22_L126_L1.1381.00
58_V66_R1.1321.00
125_A128_A1.1221.00
49_M70_M1.1161.00
133_A136_A1.0931.00
118_Y122_A1.0881.00
129_Q139_V1.0881.00
20_L24_L1.0571.00
90_A113_A1.0461.00
125_A129_Q1.0451.00
31_G34_G1.0401.00
24_L38_A1.0361.00
121_A124_A1.0321.00
46_F74_F1.0281.00
82_D86_A1.0251.00
93_A97_A1.0221.00
23_V41_L1.0201.00
44_A47_A1.0181.00
131_L135_L1.0171.00
117_A121_A1.0131.00
64_G67_M1.0061.00
90_A94_A0.9951.00
30_E34_G0.9811.00
71_A75_Y0.9791.00
45_F48_D0.9771.00
31_G35_R0.9741.00
22_L123_A0.9621.00
42_F75_Y0.9451.00
54_R60_D0.9431.00
10_D102_G0.9361.00
87_A91_A0.9231.00
132_A136_A0.8911.00
5_V11_G0.8871.00
73_A77_R0.8861.00
10_D70_M0.8821.00
48_D51_D0.8741.00
46_F71_A0.8631.00
40_A43_D0.8611.00
94_A97_A0.8541.00
74_F78_L0.8511.00
34_G131_L0.8491.00
78_L82_D0.8461.00
112_A116_A0.8461.00
30_E33_A0.8381.00
65_K69_K0.8251.00
34_G37_L0.8231.00
111_A114_A0.8211.00
97_A107_P0.8101.00
23_V139_V0.8071.00
25_R127_A0.8031.00
14_D102_G0.8021.00
96_L115_L0.8021.00
16_L52_N0.7911.00
23_V27_L0.7841.00
121_A125_A0.7771.00
84_A91_A0.7701.00
13_F73_A0.7661.00
60_D63_V0.7641.00
90_A93_A0.7601.00
58_V62_S0.7591.00
79_A82_D0.7531.00
80_A99_N0.7481.00
83_A91_A0.7481.00
120_R123_A0.7461.00
97_A109_A0.7451.00
3_L114_A0.7451.00
84_A95_A0.7421.00
24_L42_F0.7411.00
46_F99_N0.7401.00
24_L74_F0.7361.00
7_D12_R0.7321.00
42_F45_F0.7281.00
67_M71_A0.7181.00
46_F67_M0.7161.00
85_L123_A0.7081.00
94_A98_R0.7001.00
126_L129_Q0.7001.00
52_N56_M0.6991.00
124_A127_A0.6921.00
57_G60_D0.6901.00
91_A94_A0.6871.00
84_A92_L0.6871.00
49_M52_N0.6871.00
85_L120_R0.6760.99
45_F64_G0.6710.99
37_L135_L0.6690.99
20_L41_L0.6680.99
9_V52_N0.6680.99
89_D116_A0.6660.99
53_L70_M0.6600.99
110_A113_A0.6570.99
16_L49_M0.6540.99
58_V64_G0.6470.99
36_A40_A0.6460.99
113_A117_A0.6430.99
95_A99_N0.6370.99
59_G63_V0.6370.99
129_Q133_A0.6340.99
27_L34_G0.6270.99
33_A36_A0.6270.99
17_V45_F0.6260.99
96_L116_A0.6230.99
21_F28_R0.6220.99
15_M100_V0.6210.99
134_L138_R0.6150.99
46_F52_N0.6130.99
114_A117_A0.6130.99
115_L118_Y0.6100.99
72_E76_G0.6060.99
135_L138_R0.5990.99
54_R57_G0.5970.99
4_G101_Y0.5930.99
24_L41_L0.5930.99
9_V13_F0.5910.99
54_R63_V0.5850.98
34_G38_A0.5830.98
58_V61_L0.5770.98
81_Y92_L0.5690.98
110_A114_A0.5680.98
132_A135_L0.5660.98
2_D114_A0.5620.98
89_D113_A0.5620.98
112_A115_L0.5610.98
19_H122_A0.5500.98
69_K72_E0.5490.98
24_L75_Y0.5470.98
12_R16_L0.5470.98
38_A42_F0.5460.98
42_F71_A0.5420.97
33_A131_L0.5400.97
24_L28_R0.5390.97
16_L20_L0.5370.97
20_L46_F0.5360.97
50_D60_D0.5300.97
3_L101_Y0.5280.97
15_M19_H0.5260.97
96_L100_V0.5210.97
42_F46_F0.5190.97
28_R38_A0.5180.97
26_R126_L0.5170.97
92_L120_R0.5170.97
64_G68_K0.5140.97
107_P111_A0.5120.96
50_D67_M0.5120.96
109_A113_A0.5050.96
134_L139_V0.5040.96
17_V73_A0.5030.96
17_V78_L0.5030.96
73_A102_G0.5000.96
42_F74_F0.5000.96
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  
3lomA 2 0.695 4.5 0.931 Contact Map
3v46A 1 0.3404 3.8 0.934 Contact Map
4b4sA 1 0.5745 3.6 0.935 Contact Map
3kraB 1 0.6454 3.5 0.935 Contact Map
3npkA 2 0.6383 3.1 0.937 Contact Map
1nktA 3 0.4397 3.1 0.937 Contact Map
4f62A 2 0.617 3 0.938 Contact Map
3llwA 2 0.7021 2.9 0.938 Contact Map
1rqjA 2 0.6738 2.8 0.938 Contact Map
4lfgA 2 0.6312 2.8 0.939 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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