GREMLIN Database
XPF - 3'-flap repair endonuclease Xpf
UniProt: Q7LXL5 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 233 (208)
Sequences: 672 (453)
Seq/√Len: 31.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
45_V125_L4.6881.00
207_Y211_R4.2821.00
5_I125_L4.1261.00
179_F188_A3.7131.00
113_F124_V3.5231.00
43_V77_I3.3671.00
66_I104_A3.0481.00
42_D74_R2.9871.00
40_T132_F2.7961.00
39_I45_V2.6741.00
189_S192_E2.5141.00
44_A73_Y2.4870.99
194_E203_A2.4530.99
35_A44_A2.4100.99
179_F196_A2.3380.99
175_L185_I2.2880.99
39_I125_L2.2010.99
115_S124_V2.1690.99
167_V175_L2.1410.98
115_S121_T2.1300.98
190_I204_E2.0610.98
194_E200_R1.9800.97
160_I182_I1.9710.97
164_F206_I1.9630.97
23_L126_K1.9620.97
40_T73_Y1.9020.97
9_D31_Q1.8730.96
42_D132_F1.8410.96
12_K29_F1.8070.95
8_D11_E1.7830.95
190_I200_R1.7700.95
69_L72_V1.7460.94
76_P121_T1.7060.94
48_K65_Q1.7010.94
182_I185_I1.6890.93
44_A69_L1.6380.92
164_F167_V1.6170.92
121_T125_L1.5840.91
178_K192_E1.5400.90
183_Q207_Y1.5210.89
66_I110_V1.5160.89
197_L206_I1.5150.89
48_K52_D1.5040.88
79_L121_T1.4870.88
38_V44_A1.4730.87
7_A16_I1.4690.87
175_L179_F1.4240.86
69_L134_F1.4200.85
104_A112_V1.4170.85
46_E52_D1.4010.85
18_E21_K1.3980.84
4_R28_I1.3870.84
60_K161_V1.3860.84
145_H163_S1.3640.83
53_L80_V1.3420.82
11_E48_K1.3300.81
7_A154_S1.3250.81
81_E121_T1.3240.81
204_E208_K1.2830.79
14_S122_A1.2790.79
36_D48_K1.2740.78
16_I79_L1.2740.78
48_K56_S1.2690.78
46_E56_S1.2660.78
186_C210_L1.2640.78
22_E113_F1.2490.77
36_D65_Q1.2480.77
31_Q70_S1.2380.76
188_A192_E1.2340.76
64_D68_R1.2290.76
181_T208_K1.2240.75
193_L203_A1.2130.75
182_I186_C1.2070.74
67_S210_L1.1980.74
10_R48_K1.1950.74
191_S195_K1.1870.73
52_D65_Q1.1700.72
7_A78_L1.1670.72
38_V106_I1.1650.72
141_R145_H1.1640.72
52_D56_S1.1530.71
56_S61_R1.1190.69
84_I113_F1.1170.68
178_K204_E1.1090.68
14_S17_P1.1000.67
62_F78_L1.0970.67
78_L110_V1.0950.67
181_T184_N1.0920.67
181_T212_T1.0840.66
196_A203_A1.0660.65
50_V54_V1.0600.64
97_I142_I1.0490.64
46_E65_Q1.0470.63
61_R164_F1.0460.63
158_L162_E1.0120.61
87_I91_T1.0040.60
25_I126_K1.0040.60
70_S144_L1.0030.60
78_L104_A1.0030.60
4_R26_T0.9870.59
73_Y110_V0.9870.59
12_K17_P0.9830.58
56_S60_K0.9830.58
6_Y28_I0.9680.57
80_V114_Y0.9670.57
31_Q111_K0.9660.57
111_K114_Y0.9560.56
203_A207_Y0.9480.56
178_K195_K0.9480.56
14_S63_F0.9410.55
96_A168_G0.9330.54
111_K162_E0.9310.54
14_S37_Y0.9210.53
168_G171_L0.9170.53
66_I78_L0.9140.53
183_Q211_R0.9070.52
208_K214_Y0.9050.52
53_L79_L0.8990.52
111_K115_S0.8960.51
183_Q188_A0.8920.51
47_R52_D0.8800.50
190_I194_E0.8670.49
69_L80_V0.8630.49
51_N124_V0.8600.49
167_V171_L0.8600.49
176_L184_N0.8580.48
193_L206_I0.8520.48
23_L122_A0.8510.48
35_A52_D0.8380.47
163_S191_S0.8380.47
13_A118_K0.8340.46
53_L101_L0.8330.46
163_S206_I0.8300.46
32_L43_V0.8290.46
151_E190_I0.8270.46
187_N190_I0.8240.46
75_F176_L0.8180.45
157_Q209_I0.8170.45
158_L206_I0.8150.45
51_N211_R0.8140.45
116_R120_D0.8100.44
157_Q164_F0.8070.44
42_D178_K0.8060.44
168_G202_K0.8040.44
88_R121_T0.7990.44
163_S193_L0.7990.44
82_G100_A0.7920.43
191_S210_L0.7870.43
5_I8_D0.7870.43
162_E169_S0.7800.42
102_I105_T0.7790.42
39_I208_K0.7780.42
6_Y20_L0.7760.42
82_G88_R0.7720.41
172_A197_L0.7680.41
43_V144_L0.7680.41
109_D181_T0.7640.41
148_A191_S0.7640.41
203_A206_I0.7620.41
150_L162_E0.7570.40
193_L207_Y0.7560.40
40_T44_A0.7520.40
107_D131_K0.7460.39
5_I25_I0.7430.39
139_S143_S0.7420.39
120_D124_V0.7390.39
35_A65_Q0.7340.38
21_K123_E0.7330.38
17_P61_R0.7280.38
159_Y209_I0.7240.38
161_V182_I0.7220.38
33_T201_K0.7210.37
98_N182_I0.7200.37
17_P118_K0.7140.37
174_R196_A0.7130.37
46_E185_I0.7090.37
55_N59_D0.7080.37
74_R124_V0.7080.37
5_I192_E0.7070.36
69_L135_G0.7060.36
36_D46_E0.7040.36
183_Q186_C0.7020.36
38_V73_Y0.7020.36
66_I130_E0.6990.36
13_A60_K0.6950.36
45_V74_R0.6950.36
183_Q187_N0.6900.35
66_I179_F0.6870.35
95_R175_L0.6830.35
60_K63_F0.6780.34
168_G172_A0.6760.34
35_A48_K0.6730.34
11_E56_S0.6720.34
66_I198_G0.6710.34
7_A17_P0.6700.34
189_S194_E0.6690.34
195_K210_L0.6680.34
57_V149_K0.6680.34
123_E147_K0.6670.33
103_S107_D0.6660.33
184_N196_A0.6660.33
94_W98_N0.6660.33
29_F129_A0.6650.33
12_K37_Y0.6640.33
103_S175_L0.6610.33
73_Y134_F0.6600.33
142_I153_V0.6600.33
11_E36_D0.6590.33
40_T103_S0.6590.33
106_I170_I0.6550.33
37_Y112_V0.6550.33
20_L25_I0.6540.33
50_V97_I0.6520.32
77_I126_K0.6500.32
8_D65_Q0.6500.32
28_I80_V0.6480.32
104_A110_V0.6470.32
61_R65_Q0.6400.32
19_L23_L0.6400.32
115_S181_T0.6390.31
106_I175_L0.6360.31
35_A46_E0.6330.31
167_V197_L0.6320.31
114_Y135_G0.6310.31
40_T190_I0.6300.31
191_S200_R0.6290.31
66_I118_K0.6290.31
124_V201_K0.6270.31
143_S193_L0.6170.30
62_F69_L0.6150.30
117_D141_R0.6150.30
160_I164_F0.6130.30
46_E61_R0.6120.30
159_Y163_S0.6120.30
24_G176_L0.6080.29
145_H159_Y0.6060.29
68_R71_E0.6060.29
5_I66_I0.6030.29
112_V196_A0.6020.29
112_V191_S0.6020.29
50_V53_L0.6010.29
140_N202_K0.6010.29
63_F103_S0.6000.29
185_I211_R0.5990.29
175_L182_I0.5960.29
201_K205_D0.5950.28
66_I98_N0.5940.28
48_K57_V0.5930.28
185_I188_A0.5920.28
77_I131_K0.5920.28
42_D75_F0.5910.28
78_L124_V0.5850.28
19_L134_F0.5840.28
202_K205_D0.5770.27
190_I195_K0.5770.27
174_R178_K0.5760.27
175_L204_E0.5750.27
188_A193_L0.5730.27
17_P24_G0.5730.27
175_L197_L0.5720.27
27_V54_V0.5710.27
196_A213_H0.5710.27
47_R81_E0.5700.27
93_K181_T0.5660.27
9_D40_T0.5660.27
49_S52_D0.5660.27
6_Y15_G0.5600.26
158_L205_D0.5580.26
83_D138_K0.5570.26
208_K212_T0.5560.26
100_A112_V0.5560.26
20_L37_Y0.5510.26
59_D208_K0.5490.26
60_K166_N0.5490.26
51_N93_K0.5480.25
56_S166_N0.5420.25
47_R56_S0.5410.25
54_V83_D0.5410.25
205_D208_K0.5400.25
35_A198_G0.5390.25
45_V183_Q0.5380.25
66_I116_R0.5380.25
7_A12_K0.5380.25
188_A206_I0.5380.25
129_A134_F0.5350.25
58_F127_K0.5340.25
138_K163_S0.5310.24
30_S107_D0.5300.24
80_V97_I0.5290.24
163_S212_T0.5280.24
174_R210_L0.5260.24
64_D202_K0.5240.24
71_E78_L0.5200.24
6_Y212_T0.5200.24
121_T211_R0.5190.24
4_R15_G0.5170.24
69_L78_L0.5170.24
142_I204_E0.5170.24
129_A135_G0.5160.24
164_F176_L0.5150.23
70_S210_L0.5150.23
142_I212_T0.5140.23
24_G37_Y0.5130.23
27_V170_I0.5110.23
80_V183_Q0.5090.23
178_K196_A0.5060.23
150_L169_S0.5030.23
77_I160_I0.5020.23
27_V56_S0.5020.23
102_I115_S0.5020.23
5_I45_V0.5000.23
26_T150_L0.5000.23
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  
4bxoA 1 0.8498 100 0.368 Contact Map
2bgwA 2 0.9056 100 0.406 Contact Map
2ziuA 1 0.9227 100 0.439 Contact Map
4p0pA 1 0.9185 100 0.44 Contact Map
1j23A 2 0.5622 100 0.469 Contact Map
4bxoB 1 0.8155 100 0.472 Contact Map
4gfjA 1 0.7897 100 0.59 Contact Map
2csbA 1 0.7425 100 0.606 Contact Map
2ziuB 1 0.9056 99.9 0.668 Contact Map
4p0pB 1 0.9185 99.8 0.7 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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