GREMLIN Database
PDDEXK_2 - PD-(D/E)XK nuclease family transposase
PFAM: PF12784 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 230 (224)
Sequences: 14489 (10071)
Seq/√Len: 672.9
META: 0.914

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
18_D195_K4.2261.00
125_E136_E3.2201.00
223_E226_A3.0691.00
131_R135_K2.9951.00
63_D69_F2.8951.00
133_R138_G2.8901.00
125_E137_T2.7791.00
127_H148_H2.7591.00
85_S149_F2.7161.00
83_K144_K2.6811.00
218_K222_D2.4661.00
63_D67_E2.3901.00
128_H134_D2.3571.00
118_D153_P2.3561.00
151_E154_K2.3451.00
39_E62_K2.2391.00
169_K190_E2.2081.00
23_F114_I2.2071.00
62_K68_L2.1951.00
60_K68_L2.1311.00
206_D209_E2.1211.00
85_S113_N2.0241.00
132_L145_L2.0231.00
131_R140_V2.0201.00
219_A223_E1.9701.00
17_K37_D1.9591.00
91_K94_S1.9561.00
217_L221_R1.9331.00
101_E105_E1.9051.00
41_L62_K1.8211.00
47_P99_K1.8191.00
129_R135_K1.7911.00
125_E134_D1.7641.00
215_A218_K1.7511.00
221_R224_A1.7191.00
81_F113_N1.7191.00
67_E108_P1.6951.00
34_E64_E1.6401.00
184_P187_L1.6131.00
176_N179_E1.5981.00
130_F134_D1.5491.00
21_I25_N1.5421.00
37_D62_K1.5391.00
173_F196_A1.5391.00
14_E17_K1.5181.00
36_K64_E1.5151.00
57_L70_I1.5051.00
129_R146_E1.4681.00
70_I92_L1.4551.00
96_Q107_K1.4391.00
31_G34_E1.4341.00
16_N199_V1.3881.00
211_E215_A1.3861.00
133_R140_V1.3791.00
211_E214_E1.3631.00
210_R214_E1.3581.00
89_A147_I1.3461.00
75_V116_D1.3271.00
218_K221_R1.3211.00
33_E65_D1.3171.00
220_L224_A1.3101.00
89_A111_S1.2951.00
172_Y176_N1.2921.00
22_S192_G1.2831.00
9_K209_E1.2811.00
130_F139_E1.2781.00
131_R146_E1.2771.00
22_S26_A1.2761.00
125_E128_H1.2741.00
3_N6_A1.2731.00
53_K103_Y1.2691.00
223_E227_L1.2581.00
44_E56_I1.2421.00
85_S111_S1.2411.00
22_S170_W1.2371.00
89_A132_L1.2371.00
2_K73_M1.2201.00
128_H151_E1.2201.00
130_F141_L1.2141.00
86_L142_T1.1881.00
74_Q84_R1.1861.00
86_L89_A1.1841.00
215_A219_A1.1781.00
62_K66_G1.1761.00
93_Y106_L1.1711.00
221_R225_S1.1701.00
93_Y144_K1.1661.00
87_Y106_L1.1651.00
60_K92_L1.1631.00
98_K207_E1.1531.00
208_E212_A1.1401.00
93_Y109_V1.1341.00
213_Y217_L1.1261.00
102_D224_A1.1191.00
47_P54_L1.1031.00
36_K62_K1.0961.00
217_L220_L1.0941.00
123_D128_H1.0931.00
216_R220_L1.0881.00
78_Q117_F1.0801.00
91_K214_E1.0771.00
198_E201_E1.0591.00
13_E199_V1.0551.00
199_V202_I1.0481.00
16_N19_L1.0461.00
207_E211_E1.0461.00
8_K44_E1.0461.00
70_I88_Y1.0441.00
86_L132_L1.0381.00
220_L223_E1.0271.00
7_F73_M1.0231.00
9_K13_E1.0231.00
40_I43_P1.0231.00
23_F27_L1.0211.00
116_D153_P1.0201.00
108_P146_E1.0161.00
68_L107_K1.0051.00
77_N117_F0.9861.00
77_N80_D0.9751.00
97_L101_E0.9711.00
212_A216_R0.9671.00
45_L55_S0.9661.00
118_D151_E0.9621.00
5_F9_K0.9481.00
78_Q226_A0.9461.00
201_E204_S0.9411.00
47_P52_D0.9361.00
150_L171_L0.9351.00
216_R219_A0.9211.00
169_K189_K0.9201.00
183_I187_L0.9191.00
49_S52_D0.9191.00
123_D137_T0.9121.00
89_A109_V0.9071.00
69_F110_Y0.9071.00
82_K119_L0.9051.00
193_I196_A0.9031.00
156_K175_K0.9031.00
17_K21_I0.9011.00
168_D172_Y0.8981.00
117_F153_P0.8901.00
200_L204_S0.8851.00
45_L60_K0.8841.00
130_F133_R0.8821.00
68_L92_L0.8781.00
82_K141_L0.8771.00
132_L147_I0.8701.00
21_I35_I0.8661.00
158_E161_E0.8531.00
214_E218_K0.8531.00
7_F11_F0.8491.00
141_L149_F0.8461.00
202_I210_R0.8401.00
25_N34_E0.8381.00
194_K198_E0.8381.00
89_A145_L0.8211.00
86_L147_I0.8211.00
135_K140_V0.8171.00
162_L165_E0.8161.00
209_E212_A0.8131.00
41_L60_K0.8131.00
33_E64_E0.8121.00
180_E184_P0.8121.00
120_F130_F0.8101.00
222_D226_A0.8061.00
44_E54_L0.8051.00
83_K142_T0.8041.00
86_L93_Y0.8041.00
16_N195_K0.8021.00
134_D139_E0.7961.00
125_E130_F0.7951.00
13_E16_N0.7941.00
110_Y146_E0.7931.00
190_E193_I0.7921.00
155_F158_E0.7891.00
89_A93_Y0.7871.00
112_I167_L0.7871.00
55_S87_Y0.7821.00
113_N149_F0.7811.00
45_L57_L0.7811.00
129_R148_H0.7781.00
128_H139_E0.7751.00
115_L119_L0.7691.00
70_I111_S0.7621.00
125_E135_K0.7611.00
92_L109_V0.7601.00
61_C71_V0.7601.00
27_L112_I0.7581.00
219_A222_D0.7551.00
167_L171_L0.7541.00
207_E210_R0.7511.00
53_K100_G0.7511.00
134_D138_G0.7511.00
27_L167_L0.7391.00
86_L145_L0.7391.00
181_E184_P0.7341.00
19_L22_S0.7331.00
20_L40_I0.7251.00
19_L23_F0.7251.00
158_E162_L0.7241.00
81_F85_S0.7221.00
127_H150_L0.7221.00
170_W196_A0.7221.00
133_R136_E0.7161.00
33_E63_D0.7151.00
90_S94_S0.7141.00
10_L19_L0.7121.00
173_F197_F0.7101.00
114_I150_L0.7071.00
134_D137_T0.7041.00
22_S165_E0.7031.00
110_Y148_H0.7011.00
29_G34_E0.7011.00
86_L144_K0.6951.00
183_I186_A0.6951.00
80_D225_S0.6941.00
118_D122_D0.6911.00
2_K116_D0.6871.00
126_Y130_F0.6871.00
70_I109_V0.6871.00
159_E162_L0.6861.00
21_I36_K0.6851.00
15_E199_V0.6851.00
157_K161_E0.6841.00
122_D139_E0.6841.00
191_P194_K0.6801.00
19_L192_G0.6801.00
78_Q222_D0.6791.00
157_K160_D0.6771.00
202_I205_L0.6741.00
24_L28_L0.6731.00
28_L110_Y0.6711.00
155_F171_L0.6691.00
52_D98_K0.6681.00
2_K152_L0.6681.00
99_K217_L0.6641.00
130_F136_E0.6631.00
36_K66_G0.6551.00
101_E104_S0.6531.00
21_I37_D0.6511.00
156_K160_D0.6511.00
213_Y216_R0.6501.00
108_P143_D0.6481.00
222_D225_S0.6421.00
4_D8_K0.6381.00
23_F170_W0.6361.00
90_S93_Y0.6361.00
179_E182_L0.6351.00
40_I61_C0.6341.00
118_D154_K0.6321.00
161_E164_T0.6311.00
80_D102_D0.6301.00
25_N35_I0.6291.00
91_K95_E0.6171.00
133_R137_T0.6151.00
202_I214_E0.6151.00
72_E84_R0.6141.00
19_L199_V0.6111.00
208_E211_E0.6111.00
129_R136_E0.6101.00
160_D163_E0.6101.00
53_K97_L0.6091.00
11_F23_F0.6081.00
205_L209_E0.6081.00
37_D64_E0.6031.00
212_A215_A0.6021.00
150_L154_K0.6021.00
153_P156_K0.6011.00
21_I38_L0.6001.00
128_H137_T0.6001.00
118_D121_P0.5991.00
73_M114_I0.5961.00
24_L112_I0.5961.00
127_H167_L0.5951.00
154_K157_K0.5931.00
130_F147_I0.5931.00
47_P51_D0.5931.00
33_E67_E0.5931.00
126_Y134_D0.5921.00
80_D104_S0.5841.00
127_H130_F0.5841.00
197_F201_E0.5831.00
128_H132_L0.5821.00
26_A167_L0.5801.00
189_K194_K0.5791.00
60_K95_E0.5781.00
67_E107_K0.5771.00
195_K198_E0.5691.00
81_F117_F0.5681.00
214_E217_L0.5681.00
164_T168_D0.5671.00
58_D72_E0.5671.00
123_D134_D0.5661.00
54_L99_K0.5651.00
42_N46_L0.5641.00
55_S91_K0.5621.00
155_F168_D0.5621.00
135_K138_G0.5571.00
19_L196_A0.5561.00
125_E129_R0.5541.00
159_E163_E0.5541.00
133_R139_E0.5481.00
195_K199_V0.5481.00
140_V143_D0.5461.00
154_K158_E0.5461.00
5_F47_P0.5461.00
27_L150_L0.5461.00
55_S88_Y0.5441.00
157_K162_L0.5421.00
78_Q81_F0.5411.00
214_E221_R0.5391.00
52_D95_E0.5381.00
17_K40_I0.5351.00
88_Y103_Y0.5341.00
68_L96_Q0.5331.00
45_L95_E0.5311.00
24_L35_I0.5301.00
160_D165_E0.5261.00
169_K193_I0.5261.00
63_D66_G0.5230.99
48_E94_S0.5170.99
58_D84_R0.5130.99
204_S207_E0.5110.99
179_E183_I0.5100.99
20_L24_L0.5080.99
200_L203_A0.5080.99
165_E190_E0.5040.99
3_N213_Y0.5040.99
82_K142_T0.5040.99
101_E224_A0.5030.99
22_S190_E0.5020.99
206_D213_Y0.5020.99
25_N32_E0.5010.99
33_E37_D0.5010.99
16_N20_L0.5000.99
116_D175_K0.5000.99
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  
2vldA 2 0.487 18.3 0.932 Contact Map
2y8nA 2 0.3826 12 0.937 Contact Map
1r9dA 2 0.3826 11.2 0.938 Contact Map
2f3oA 3 0.3783 11 0.938 Contact Map
5a0uA 2 0.387 10.8 0.938 Contact Map
1h16A 2 0.387 4.5 0.948 Contact Map
4je3A 1 0.6348 2.8 0.953 Contact Map
2wn4A 1 0.0696 2.3 0.955 Contact Map
4xgcC 1 0.1696 2.1 0.956 Contact Map
4memA 2 0.3783 2 0.957 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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