GREMLIN Database
YNCF - Probable deoxyuridine 5'-triphosphate nucleotidohydrolase YncF
UniProt: O31801 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 144 (135)
Sequences: 3780 (2273)
Seq/√Len: 195.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
51_E131_G2.6661.00
26_I124_L2.5561.00
105_K108_D2.4531.00
33_D105_K2.4241.00
37_K101_D2.3591.00
58_A113_F2.3221.00
23_G84_S2.1131.00
21_E84_S2.0731.00
37_K40_E2.0701.00
70_F102_T1.9901.00
35_T103_E1.9881.00
68_K92_W1.8961.00
22_Q83_E1.8841.00
25_W115_I1.8501.00
45_P90_D1.8301.00
9_Y126_E1.7791.00
19_K121_A1.7571.00
41_F71_G1.7491.00
72_V102_T1.7461.00
61_V80_V1.7251.00
13_T106_K1.6881.00
52_L116_M1.6811.00
38_K101_D1.6731.00
50_M58_A1.6711.00
35_T101_D1.6321.00
30_A104_I1.6301.00
108_D143_T1.6111.00
43_L68_K1.6071.00
52_L58_A1.6071.00
40_E99_L1.5991.00
19_K26_I1.5841.00
15_T29_R1.5631.00
33_D106_K1.5471.00
51_E86_K1.5231.00
57_E80_V1.4571.00
59_H117_K1.4421.00
94_F97_Y1.4381.00
59_H80_V1.4111.00
28_L58_A1.4071.00
19_K122_V1.3711.00
18_S29_R1.3651.00
58_A116_M1.3551.00
91_F111_C1.3461.00
61_V117_K1.3411.00
43_L90_D1.3401.00
45_P88_D1.3241.00
10_L49_A1.2881.00
36_I42_K1.2691.00
14_Q106_K1.2671.00
73_I94_F1.2581.00
47_G88_D1.2211.00
116_M122_V1.2151.00
92_W138_L1.2051.00
56_Y120_P1.1761.00
31_A106_K1.1651.00
62_P77_S1.1621.00
7_I16_R1.1581.00
56_Y116_M1.1531.00
33_D103_E1.1461.00
57_E61_V1.1421.00
14_Q31_A1.1361.00
28_L113_F1.1351.00
46_L91_F1.1211.00
20_I29_R1.1181.00
60_V113_F1.1161.00
52_L56_Y1.1071.00
11_D31_A1.1061.00
60_V111_C1.0971.00
61_V78_M1.0851.00
62_P73_I1.0811.00
73_I97_Y1.0801.00
63_R109_R1.0781.00
39_D99_L1.0441.00
57_E117_K1.0221.00
50_M89_N0.9961.00
26_I113_F0.9850.99
22_Q54_E0.9810.99
91_F110_I0.9800.99
28_L60_V0.9630.99
86_K130_L0.9550.99
24_D83_E0.9540.99
109_R142_G0.9520.99
24_D57_E0.9380.99
34_V104_I0.9280.99
34_V44_V0.9190.99
9_Y16_R0.9170.99
20_I140_S0.9130.99
11_D14_Q0.8970.99
75_T94_F0.8950.99
41_F94_F0.8910.99
50_M113_F0.8860.99
113_F116_M0.8840.99
73_I77_S0.8790.99
71_G98_A0.8740.99
11_D47_G0.8710.99
75_T92_W0.8680.99
70_F108_D0.8580.99
8_K49_A0.8560.99
39_D97_Y0.8530.99
39_D98_A0.8490.98
70_F143_T0.8490.98
62_P78_M0.8430.98
34_V42_K0.8330.98
61_V115_I0.8320.98
62_P74_Q0.8250.98
74_Q93_F0.8240.98
60_V91_F0.8200.98
32_E45_P0.8170.98
48_V89_N0.8080.98
44_V93_F0.8040.98
38_K95_P0.8020.98
59_H115_I0.7970.98
51_E130_L0.7760.97
8_K11_D0.7750.97
31_A45_P0.7740.97
36_I95_P0.7740.97
68_K90_D0.7670.97
43_L92_W0.7640.97
74_Q78_M0.7600.97
30_A44_V0.7600.97
8_K129_H0.7590.97
49_A130_L0.7480.97
59_H78_M0.7480.97
20_I141_T0.7410.96
41_F97_Y0.7370.96
24_D52_L0.7370.96
81_I92_W0.7260.96
67_Y92_W0.7220.96
52_L83_E0.7190.96
68_K75_T0.7180.96
21_E141_T0.7140.96
13_T31_A0.7090.95
78_M92_W0.7020.95
28_L48_V0.7000.95
26_I122_V0.6990.95
127_V130_L0.6970.95
104_I110_I0.6960.95
86_K133_E0.6870.95
32_E106_K0.6830.94
29_R48_V0.6810.94
83_E119_M0.6760.94
93_F110_I0.6740.94
70_F100_R0.6710.94
60_V74_Q0.6680.94
57_E115_I0.6680.94
62_P76_N0.6640.94
28_L91_F0.6630.94
28_L111_C0.6630.94
32_E42_K0.6590.93
16_R126_E0.6470.93
75_T78_M0.6450.93
67_Y75_T0.6370.92
11_D15_T0.6300.92
54_E83_E0.6270.92
9_Y14_Q0.6150.91
24_D119_M0.6140.91
81_I89_N0.6130.91
15_T106_K0.5940.89
19_K124_L0.5910.89
14_Q29_R0.5900.89
95_P98_A0.5880.89
36_I94_F0.5850.89
130_L133_E0.5800.88
12_E15_T0.5770.88
71_G97_Y0.5740.88
80_V115_I0.5720.87
74_Q77_S0.5710.87
49_A88_D0.5560.86
30_A33_D0.5540.86
7_I10_L0.5530.86
58_A81_I0.5530.86
67_Y78_M0.5520.86
24_D116_M0.5520.86
62_P66_T0.5510.85
47_G90_D0.5470.85
77_S97_Y0.5450.85
52_L55_G0.5430.85
7_I124_L0.5430.85
119_M124_L0.5420.84
72_V93_F0.5420.84
129_H132_N0.5410.84
75_T89_N0.5370.84
64_S137_G0.5310.83
75_T97_Y0.5260.83
55_G118_K0.5230.82
84_S141_T0.5200.82
51_E133_E0.5200.82
41_F92_W0.5180.82
41_F99_L0.5180.82
38_K99_L0.5170.82
57_E78_M0.5150.81
74_Q138_L0.5140.81
77_S94_F0.5120.81
10_L14_Q0.5110.81
52_L113_F0.5110.81
7_I11_D0.5090.81
8_K128_E0.5080.80
119_M122_V0.5080.80
9_Y13_T0.5070.80
117_K120_P0.5020.80
66_T70_F0.5000.79
40_E100_R0.5000.79
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  
3hzaA 3 0.9861 100 0.152 Contact Map
4gv8A 3 0.875 100 0.163 Contact Map
3mdxA 3 0.9028 100 0.163 Contact Map
3zf6A 3 0.9583 100 0.169 Contact Map
4b0hA 3 0.9722 100 0.176 Contact Map
3f4fA 3 0.9306 100 0.179 Contact Map
3tqzA 3 0.9028 100 0.184 Contact Map
3t64A 3 0.9375 100 0.185 Contact Map
3araA 3 0.8542 100 0.187 Contact Map
1euwA 3 0.8889 100 0.187 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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