GREMLIN Database
DoxD - TQO small subunit DoxD
PFAM: PF04173 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 167 (142)
Sequences: 2773 (1744)
Seq/√Len: 146.3
META: 0.847

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
81_G91_A4.1041.00
82_L88_T2.7691.00
3_L7_L2.4731.00
97_L101_N2.2951.00
90_L94_G2.1971.00
135_A138_W2.1421.00
66_G70_A2.0701.00
116_E119_I2.0671.00
80_L84_L2.0571.00
35_Y39_Q2.0421.00
116_E120_D2.0141.00
115_D118_G1.9821.00
51_K55_E1.9511.00
88_T135_A1.8481.00
68_L72_G1.8071.00
86_L140_L1.7961.00
120_D123_F1.7941.00
139_G142_A1.6911.00
21_K25_P1.6671.00
48_S51_K1.6651.00
77_A81_G1.6651.00
118_G121_L1.5721.00
18_L76_L1.5621.00
17_G76_L1.5571.00
41_N44_L1.5481.00
70_A76_L1.5301.00
49_P52_P1.4981.00
42_G46_H1.4921.00
52_P55_E1.4841.00
5_L126_A1.4781.00
133_A136_G1.4581.00
22_L25_P1.4441.00
126_A129_V1.4441.00
58_V65_F1.4411.00
119_I122_L1.4381.00
43_A46_H1.4361.00
78_V94_G1.4271.00
125_A129_V1.4181.00
107_G110_G1.3931.00
114_P117_W1.3851.00
78_V95_G1.3371.00
96_L124_L1.3281.00
42_G45_A1.3281.00
10_G83_L1.3221.00
67_Y71_F1.2921.00
35_Y38_G1.2791.00
43_A47_A1.2601.00
31_S34_G1.2531.00
129_V132_L1.2451.00
21_K24_D1.2231.00
128_L132_L1.1981.00
124_L127_W1.1841.00
117_W120_D1.1821.00
133_A137_R1.1731.00
12_T15_Y1.1691.00
40_L44_L1.1661.00
13_F99_S1.1611.00
52_P56_N1.1491.00
65_F68_L1.1370.99
69_V72_G1.1370.99
92_A131_L1.1250.99
98_L102_L1.1080.99
115_D119_I1.1080.99
133_A138_W1.1070.99
51_K54_L1.1060.99
50_I54_L1.0960.99
44_L47_A1.0930.99
56_N59_L1.0890.99
39_Q44_L1.0580.99
61_H65_F1.0550.99
57_L65_F1.0490.99
39_Q42_G1.0410.99
101_N105_A1.0410.99
48_S52_P1.0350.99
50_I53_F1.0330.99
25_P28_L1.0280.99
110_G115_D1.0220.99
84_L140_L1.0160.99
53_F58_V1.0120.99
4_P8_F1.0070.99
118_G122_L1.0010.99
55_E59_L0.9740.98
78_V91_A0.9720.98
121_L125_A0.9700.98
20_K24_D0.9650.98
29_D32_A0.9610.98
41_N47_A0.9590.98
38_G43_A0.9450.98
135_A141_D0.9400.98
36_I39_Q0.9350.98
100_L104_L0.9300.98
39_Q43_A0.9260.98
53_F57_L0.9260.98
122_L126_A0.9100.97
24_D27_F0.9100.97
33_A39_Q0.9100.97
14_L76_L0.9090.97
103_L107_G0.9050.97
71_F77_A0.9050.97
63_A67_Y0.9020.97
115_D120_D0.8980.97
92_A99_S0.8970.97
123_F127_W0.8840.97
32_A38_G0.8830.97
129_V134_G0.8790.97
89_R133_A0.8700.97
11_W15_Y0.8580.96
62_A66_G0.8520.96
57_L60_P0.8500.96
99_S103_L0.8460.96
121_L126_A0.8410.96
28_L31_S0.8360.96
20_K25_P0.8350.96
53_F56_N0.8330.96
131_L134_G0.8270.96
14_L79_G0.8260.96
81_G87_L0.8260.96
122_L125_A0.8020.95
40_L43_A0.7970.95
93_L97_L0.7960.95
56_N60_P0.7910.94
13_F95_G0.7880.94
50_I105_A0.7880.94
127_W131_L0.7860.94
96_L131_L0.7840.94
36_I40_L0.7840.94
34_G39_Q0.7810.94
48_S55_E0.7730.94
27_F31_S0.7710.94
8_F125_A0.7700.94
134_G137_R0.7700.94
129_V133_A0.7690.94
15_Y18_L0.7610.93
26_G34_G0.7580.93
89_R134_G0.7560.93
120_D127_W0.7520.93
134_G138_W0.7470.93
137_R142_A0.7450.92
131_L136_G0.7390.92
37_G41_N0.7350.92
142_A146_R0.7310.92
34_G38_G0.7280.92
30_P37_G0.7130.91
120_D125_A0.7120.91
17_G20_K0.7110.91
13_F98_L0.7110.91
118_G126_A0.7050.90
33_A37_G0.6990.90
57_L61_H0.6970.90
53_F65_F0.6970.90
58_V61_H0.6860.89
144_L147_R0.6850.89
106_A110_G0.6820.89
28_L32_A0.6820.89
114_P118_G0.6810.89
67_Y70_A0.6800.89
29_D33_A0.6780.88
44_L52_P0.6670.88
122_L127_W0.6620.87
81_G86_L0.6620.87
126_A133_A0.6580.87
23_L28_L0.6490.86
11_W83_L0.6480.86
143_L147_R0.6430.86
110_G116_E0.6370.85
105_A109_L0.6270.84
121_L124_L0.6270.84
26_G30_P0.6180.83
138_W142_A0.6150.83
17_G98_L0.6150.83
81_G94_G0.6130.83
47_A50_I0.6110.83
41_N46_H0.6090.82
105_A108_W0.6050.82
98_L101_N0.6030.82
82_L127_W0.6010.82
24_D28_L0.6010.82
101_N104_L0.5990.81
68_L71_F0.5990.81
19_E103_L0.5970.81
13_F89_R0.5970.81
54_L58_V0.5970.81
119_I125_A0.5880.80
104_L107_G0.5830.80
35_Y44_L0.5770.79
108_W111_T0.5770.79
6_R10_G0.5750.79
10_G14_L0.5730.78
21_K27_F0.5730.78
42_G47_A0.5720.78
50_I101_N0.5690.78
8_F11_W0.5620.77
77_A94_G0.5540.76
119_I123_F0.5460.75
38_G41_N0.5460.75
94_G97_L0.5450.75
27_F32_A0.5410.74
16_A108_W0.5400.74
27_F30_P0.5260.72
78_V81_G0.5250.72
123_F126_A0.5210.72
17_G91_A0.5160.71
34_G37_G0.5140.71
28_L37_G0.5090.70
49_P53_F0.5080.70
89_R145_A0.5070.70
136_G139_G0.5060.69
61_H66_G0.5060.69
96_L100_L0.5040.69
120_D126_A0.5020.69
100_L103_L0.5020.69
107_G111_T0.5010.69
86_L141_D0.5000.69
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  
3ogkQ 1 0.0778 1.5 0.957 Contact Map
4he8H 1 0.2395 1 0.961 Contact Map
4yz6B 1 0.1078 1 0.961 Contact Map
4p6vD 1 0.5569 0.6 0.966 Contact Map
3pjzA 2 0.503 0.6 0.967 Contact Map
1ffkY 1 0.1437 0.5 0.968 Contact Map
2amnA 1 0.1257 0.5 0.968 Contact Map
4ujrY 1 0.1497 0.5 0.968 Contact Map
3lweA 2 0.2036 0.5 0.968 Contact Map
3f2uA 2 0.1916 0.5 0.968 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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