GREMLIN Database
NUCA - DNA-entry nuclease
UniProt: P12667 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 147 (124)
Sequences: 104 (82)
Seq/√Len: 7.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
61_D115_E6.0351.00
129_V144_F4.4730.98
100_W144_F3.2630.90
61_D64_N3.0680.86
104_M133_L2.5770.75
48_P105_C2.2980.66
71_C102_M2.1890.62
48_P71_C2.1140.59
71_C105_C2.0840.58
135_D146_I1.9250.51
80_E95_Y1.8770.49
55_T102_M1.8340.48
84_Q87_K1.8300.48
114_V134_T1.7140.43
42_D143_L1.7090.43
25_K28_F1.7080.43
119_P125_A1.6820.42
114_V119_P1.6770.42
26_G29_F1.6660.41
63_I102_M1.6580.41
47_F128_W1.6490.41
100_W133_L1.6460.40
55_T63_I1.6460.40
100_W128_W1.6270.40
64_N115_E1.6050.39
47_F105_C1.5720.38
60_K67_H1.5380.36
49_S56_A1.5310.36
71_C128_W1.4530.33
45_M118_S1.3930.31
47_F129_V1.3640.30
74_D77_G1.3290.29
42_D70_V1.3120.29
105_C128_W1.2720.27
45_M57_K1.2540.27
35_T70_V1.2180.26
44_T132_R1.2170.26
70_V83_E1.1950.25
48_P128_W1.1870.25
64_N91_S1.1850.25
50_D115_E1.1460.24
67_H143_L1.1200.23
23_L28_F1.1140.23
40_E136_Y1.1130.23
28_F36_S1.0990.22
25_K30_S1.0810.22
134_T142_V1.0590.21
81_R130_G1.0420.21
41_Y93_K1.0380.21
23_L26_G1.0310.20
64_N113_S1.0290.20
43_E81_R1.0260.20
33_Q87_K1.0210.20
103_A139_G1.0210.20
106_K129_V1.0180.20
47_F71_C1.0100.20
66_G123_R0.9940.20
24_I31_A0.9880.19
79_E91_S0.9840.19
24_I27_D0.9820.19
57_K115_E0.9710.19
41_Y70_V0.9650.19
55_T125_A0.9640.19
79_E83_E0.9600.19
55_T71_C0.9560.19
35_T40_E0.9550.19
131_H134_T0.9540.19
105_C129_V0.9520.19
54_E118_S0.9510.19
51_R120_A0.9450.18
102_M133_L0.9420.18
30_S33_Q0.9330.18
63_I100_W0.9230.18
73_I124_G0.9180.18
92_K95_Y0.9080.17
48_P68_S0.9040.17
71_C100_W0.9010.17
41_Y130_G0.9000.17
71_C90_P0.8680.17
90_P116_Y0.8680.17
64_N76_D0.8660.17
65_E115_E0.8660.17
42_D67_H0.8640.17
37_Q76_D0.8630.16
43_E141_K0.8610.16
102_M128_W0.8530.16
60_K113_S0.8530.16
66_G94_G0.8490.16
28_F32_D0.8430.16
55_T100_W0.8240.16
107_E111_G0.8240.16
60_K115_E0.8180.16
118_S129_V0.8150.15
81_R91_S0.8040.15
65_E70_V0.7960.15
70_V88_D0.7950.15
48_P102_M0.7940.15
27_D30_S0.7930.15
63_I71_C0.7930.15
54_E119_P0.7900.15
24_I30_S0.7860.15
25_K70_V0.7830.15
33_Q38_T0.7740.15
128_W133_L0.7690.15
43_E114_V0.7690.15
79_E90_P0.7650.14
39_K144_F0.7630.14
46_A110_E0.7620.14
27_D31_A0.7600.14
105_C116_Y0.7530.14
68_S71_C0.7410.14
23_L30_S0.7390.14
26_G32_D0.7360.14
27_D114_V0.7350.14
118_S146_I0.7290.14
51_R94_G0.7280.14
31_A60_K0.7280.14
93_K125_A0.7230.14
25_K106_K0.7210.14
73_I108_G0.7200.14
60_K106_K0.7180.14
79_E132_R0.7160.14
117_I129_V0.7140.14
100_W146_I0.7100.13
77_G118_S0.6900.13
93_K143_L0.6890.13
96_D123_R0.6890.13
97_R123_R0.6890.13
108_G124_G0.6850.13
113_S118_S0.6810.13
28_F35_T0.6600.13
132_R142_V0.6540.12
48_P116_Y0.6530.12
80_E84_Q0.6510.12
53_P97_R0.6470.12
53_P96_D0.6470.12
86_L97_R0.6450.12
86_L96_D0.6450.12
67_H130_G0.6410.12
65_E137_P0.6400.12
59_I72_T0.6330.12
118_S125_A0.6320.12
71_C116_Y0.6270.12
95_Y120_A0.6260.12
60_K114_V0.6210.12
53_P103_A0.6170.12
53_P139_G0.6170.12
43_E133_L0.6160.12
54_E117_I0.6120.12
24_I29_F0.6100.12
29_F32_D0.6080.12
68_S105_C0.6060.12
57_K65_E0.5970.11
25_K29_F0.5960.11
23_L29_F0.5920.11
60_K77_G0.5780.11
78_A91_S0.5750.11
41_Y67_H0.5740.11
84_Q113_S0.5730.11
26_G44_T0.5690.11
93_K146_I0.5630.11
89_V116_Y0.5590.11
28_F33_Q0.5590.11
114_V142_V0.5580.11
87_K132_R0.5570.11
39_K74_D0.5530.11
55_T121_D0.5520.11
24_I60_K0.5520.11
27_D35_T0.5440.11
34_K49_S0.5400.11
127_S140_T0.5400.11
57_K110_E0.5390.11
49_S117_I0.5360.11
26_G31_A0.5240.10
45_M140_T0.5220.10
41_Y143_L0.5220.10
31_A120_A0.5190.10
60_K89_V0.5130.10
25_K32_D0.5110.10
30_S106_K0.5080.10
57_K64_N0.5070.10
44_T51_R0.5040.10
27_D40_E0.5030.10
117_I143_L0.5010.10
88_D132_R0.5010.10
30_S35_T0.5000.10
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  
1fwxA 2 0.9048 18 0.958 Contact Map
1yr2A 1 0.6259 16.2 0.959 Contact Map
4yv7A 1 0.7347 10.2 0.962 Contact Map
4od6A 1 0.5102 10.1 0.962 Contact Map
3cvzA 1 0.5578 6.5 0.965 Contact Map
4ys6A 1 0.7211 5.3 0.967 Contact Map
4wzzA 1 0.7551 5 0.967 Contact Map
3vgiA 1 0.3741 5 0.967 Contact Map
4r9fA 1 0.7143 4.8 0.968 Contact Map
3gybA 2 0.8299 4.8 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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