GREMLIN Database
Q97XJ3 - Terminal quinol oxidase, subunit (DoxD)
UniProt: Q97XJ3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 183 (159)
Sequences: 100 (60)
Seq/√Len: 4.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
83_T100_I3.0900.71
110_F147_M3.0530.70
99_L146_L2.7270.61
22_I142_G2.5730.56
25_A28_W2.4170.51
21_P39_I2.3600.49
30_F66_P2.2720.46
94_L114_V2.1680.43
26_V82_V2.1110.41
15_R21_P2.0700.40
103_F161_L2.0640.40
19_L149_T2.0530.40
70_F91_V2.0320.39
101_I164_K1.9970.38
49_S160_Y1.9600.37
30_F116_A1.9480.36
104_L148_L1.9270.36
99_L142_G1.9260.36
159_Y163_K1.8610.34
68_K161_L1.8070.32
38_A43_A1.7560.31
53_V82_V1.6980.29
13_L161_L1.6980.29
160_Y169_S1.6960.29
98_F148_L1.6920.29
26_V100_I1.6370.28
50_S98_F1.6190.27
75_L110_F1.5960.27
43_A48_N1.5930.27
80_F151_A1.5850.27
54_G60_F1.4810.24
41_K48_N1.4810.24
80_F117_I1.4670.24
32_D60_F1.4660.24
71_L121_P1.4570.24
137_S141_A1.4520.23
20_F146_L1.4360.23
91_V107_L1.4250.23
157_V163_K1.4220.23
72_L76_E1.3800.22
66_P100_I1.3560.21
146_L151_A1.3450.21
37_K123_Y1.3420.21
100_I160_Y1.3400.21
91_V140_T1.3180.21
33_G89_S1.2980.20
114_V153_R1.2960.20
60_F134_Q1.2930.20
60_F135_I1.2930.20
139_L143_A1.2920.20
91_V155_W1.2840.20
104_L169_S1.2770.20
70_F94_L1.2670.19
34_G52_F1.2580.19
117_I125_L1.2580.19
49_S99_L1.2130.18
120_A136_G1.2110.18
18_Y149_T1.2080.18
86_T140_T1.2060.18
108_S127_S1.2060.18
104_L147_M1.1990.18
30_F147_M1.1880.18
80_F86_T1.1470.17
114_V144_I1.1410.17
35_I63_H1.1340.17
74_T115_M1.1340.17
73_M104_L1.1300.17
81_D128_T1.1170.17
161_L166_G1.0900.16
33_G120_A1.0830.16
13_L77_N1.0820.16
77_N94_L1.0770.16
57_L143_A1.0770.16
103_F165_F1.0540.16
104_L111_G1.0510.16
71_L112_A1.0420.15
25_A74_T1.0360.15
52_F109_A1.0340.15
128_T133_W1.0340.15
163_K166_G1.0300.15
39_I164_K1.0240.15
87_I149_T1.0210.15
33_G119_M1.0160.15
66_P143_A1.0120.15
43_A103_F1.0000.15
39_I101_I0.9830.14
25_A115_M0.9760.14
104_L137_S0.9760.14
87_I110_F0.9740.14
14_T103_F0.9690.14
100_I112_A0.9520.14
32_D89_S0.9480.14
141_A151_A0.9480.14
119_M134_Q0.9400.14
119_M135_I0.9400.14
46_D49_S0.9400.14
24_F152_G0.9350.14
163_K167_D0.9310.14
33_G135_I0.9300.14
33_G134_Q0.9300.14
15_R110_F0.9230.14
49_S146_L0.9210.14
12_N83_T0.9130.13
148_L160_Y0.9070.13
85_L155_W0.9060.13
51_S59_N0.8980.13
82_V100_I0.8970.13
58_V143_A0.8840.13
125_L142_G0.8830.13
146_L163_K0.8770.13
20_F155_W0.8760.13
145_V149_T0.8760.13
161_L165_F0.8740.13
81_D123_Y0.8720.13
87_I107_L0.8720.13
111_G164_K0.8670.13
113_A152_G0.8660.13
157_V165_F0.8590.13
22_I161_L0.8550.13
160_Y163_K0.8510.13
117_I144_I0.8430.12
31_F119_M0.8410.12
54_G135_I0.8390.12
54_G134_Q0.8390.12
34_G119_M0.8350.12
21_P153_R0.8230.12
120_A135_I0.8230.12
120_A134_Q0.8230.12
27_G105_T0.8040.12
157_V160_Y0.8030.12
87_I163_K0.7980.12
167_D171_S0.7970.12
104_L163_K0.7970.12
164_K169_S0.7930.12
93_I164_K0.7890.12
153_R163_K0.7750.11
77_N142_G0.7750.11
54_G61_L0.7740.11
101_I168_W0.7700.11
78_R89_S0.7690.11
57_L121_P0.7690.11
118_G135_I0.7680.11
118_G134_Q0.7680.11
87_I170_L0.7660.11
35_I55_G0.7610.11
46_D145_V0.7600.11
63_H135_I0.7510.11
63_H134_Q0.7510.11
60_F119_M0.7450.11
32_D156_G0.7420.11
151_A163_K0.7320.11
14_T145_V0.7320.11
54_G119_M0.7270.11
58_V139_L0.7200.11
24_F59_N0.7160.11
21_P83_T0.7080.11
39_I168_W0.7040.11
40_L138_L0.7030.11
30_F127_S0.7020.11
146_L152_G0.7000.11
86_T91_V0.6950.11
77_N162_Y0.6940.10
15_R167_D0.6920.10
141_A144_I0.6910.10
157_V172_K0.6890.10
101_I107_L0.6870.10
29_M53_V0.6870.10
73_M80_F0.6860.10
119_M137_S0.6860.10
33_G58_V0.6840.10
38_A53_V0.6840.10
33_G121_P0.6830.10
101_I111_G0.6810.10
86_T157_V0.6800.10
49_S87_I0.6760.10
49_S98_F0.6760.10
20_F25_A0.6750.10
100_I159_Y0.6660.10
17_E21_P0.6640.10
79_T162_Y0.6600.10
87_I160_Y0.6580.10
110_F172_K0.6570.10
37_K81_D0.6560.10
35_I39_I0.6510.10
123_Y150_A0.6420.10
58_V120_A0.6410.10
51_S55_G0.6370.10
28_W91_V0.6370.10
25_A71_L0.6350.10
72_L107_L0.6280.10
14_T167_D0.6220.10
19_L49_S0.6180.10
32_D93_I0.6170.10
41_K77_N0.6110.10
31_F135_I0.6090.10
31_F134_Q0.6090.10
75_L79_T0.6070.09
33_G93_I0.6050.09
60_F118_G0.6020.09
73_M147_M0.6020.09
50_S172_K0.5970.09
35_I138_L0.5970.09
18_Y164_K0.5940.09
30_F75_L0.5920.09
130_E139_L0.5890.09
32_D119_M0.5880.09
80_F166_G0.5850.09
73_M86_T0.5840.09
70_F114_V0.5840.09
87_I114_V0.5800.09
50_S157_V0.5790.09
24_F89_S0.5780.09
73_M107_L0.5710.09
160_Y167_D0.5710.09
70_F151_A0.5710.09
167_D170_L0.5680.09
30_F112_A0.5670.09
87_I113_A0.5640.09
28_W100_I0.5610.09
40_L130_E0.5580.09
68_K122_A0.5580.09
70_F84_F0.5560.09
49_S155_W0.5530.09
20_F151_A0.5380.09
21_P98_F0.5370.09
28_W115_M0.5330.09
48_N77_N0.5310.09
17_E55_G0.5280.09
18_Y46_D0.5270.09
13_L70_F0.5270.09
29_M116_A0.5270.09
90_Y111_G0.5260.09
86_T93_I0.5200.09
70_F148_L0.5170.09
52_F127_S0.5060.08
107_L111_G0.5050.08
30_F94_L0.5020.08
28_W138_L0.5000.08
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  
2giyA 2 0.2951 2.8 0.976 Contact Map
3klyA 3 0.4754 2.1 0.978 Contact Map
1vyiA 1 0.2623 2.1 0.978 Contact Map
4kieA 1 0.2459 2 0.978 Contact Map
4im4A 1 0.3607 2 0.978 Contact Map
2m7gA 1 0.3333 1.9 0.978 Contact Map
4htyA 1 0.3607 1.9 0.978 Contact Map
2wcwA 2 0.3607 1.9 0.978 Contact Map
3kcuA 3 0.4426 1.9 0.978 Contact Map
3oa1A 1 0.306 1.8 0.979 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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