GREMLIN Database
DDE_Tnp_4 - DDE superfamily endonuclease
PFAM: PF13359 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 158 (153)
Sequences: 21420 (14050)
Seq/√Len: 1135.8
META: 0.766

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
33_Q84_Y4.3281.00
34_V124_F4.0071.00
7_P27_R3.4421.00
56_S60_R3.1301.00
36_V120_V2.5891.00
97_P100_G2.5641.00
37_D43_I2.4251.00
94_Y109_F2.3951.00
94_Y106_Q2.3871.00
42_I123_A2.3711.00
132_R136_D2.3331.00
119_V122_H2.2521.00
103_T106_Q2.2501.00
49_T58_V2.1851.00
118_I122_H2.0921.00
5_E29_T2.0861.00
4_T128_K2.0821.00
34_V42_I2.0421.00
36_V123_A1.9251.00
45_V154_C1.9201.00
138_Y146_A1.8621.00
127_L154_C1.8441.00
33_Q44_H1.8011.00
125_G130_R1.7921.00
37_D41_R1.7871.00
53_V57_T1.7641.00
40_G126_R1.7331.00
23_G29_T1.6861.00
109_F113_L1.6751.00
80_G92_T1.6581.00
32_V48_G1.6211.00
134_L153_C1.6201.00
82_S85_P1.6041.00
40_G122_H1.5191.00
79_L113_L1.5191.00
23_G27_R1.4981.00
23_G26_K1.4911.00
59_L65_L1.4201.00
29_T51_G1.3881.00
111_R115_S1.3311.00
57_T61_E1.3141.00
50_P53_V1.3041.00
136_D139_R1.3031.00
1_I80_G1.2951.00
97_P101_P1.2731.00
53_V61_E1.2471.00
132_R135_K1.2221.00
152_A155_G1.2001.00
93_P96_K1.1971.00
110_N114_S1.1891.00
17_Q28_H1.1731.00
35_V64_L1.1631.00
133_I149_I1.1571.00
17_Q20_Y1.1481.00
117_R121_E1.1351.00
8_I11_P1.1281.00
92_T95_K1.1251.00
49_T53_V1.1221.00
40_G119_V1.1101.00
148_K151_L1.1001.00
6_I32_V1.0881.00
127_L153_C1.0751.00
5_E31_K1.0741.00
104_E108_A1.0641.00
126_R130_R1.0571.00
120_V124_F1.0551.00
143_L146_A1.0291.00
54_H57_T1.0221.00
149_I153_C1.0211.00
79_L116_V1.0161.00
25_K29_T1.0141.00
35_V78_V1.0111.00
133_I153_C1.0061.00
127_L134_L1.0051.00
22_S28_H1.0041.00
140_N149_I0.9951.00
46_S49_T0.9931.00
129_R132_R0.9801.00
3_G31_K0.9801.00
145_K149_I0.9751.00
31_K58_V0.9741.00
49_T62_S0.9701.00
108_A112_R0.9701.00
17_Q21_Y0.9681.00
63_G66_D0.9641.00
90_L93_P0.9581.00
9_Q139_R0.9541.00
20_Y28_H0.9501.00
114_S118_I0.9471.00
72_L75_G0.9421.00
49_T61_E0.9341.00
91_L109_F0.9141.00
73_P76_L0.9131.00
146_A149_I0.9071.00
5_E25_K0.9011.00
3_G33_Q0.8881.00
56_S85_P0.8791.00
13_D16_R0.8691.00
3_G58_V0.8581.00
140_N145_K0.8541.00
21_Y26_K0.8511.00
78_V81_D0.8461.00
146_A150_V0.8421.00
51_G55_D0.8351.00
30_I48_G0.8291.00
20_Y30_I0.8231.00
33_Q58_V0.8201.00
147_D151_L0.8191.00
8_I20_Y0.8151.00
36_V119_V0.8101.00
98_R101_P0.8001.00
35_V43_I0.7991.00
116_V119_V0.7961.00
21_Y28_H0.7941.00
6_I146_A0.7921.00
148_K152_A0.7881.00
138_Y149_I0.7861.00
57_T60_R0.7781.00
45_V151_L0.7771.00
33_Q62_S0.7761.00
65_L69_E0.7741.00
32_V150_V0.7731.00
21_Y24_K0.7601.00
77_Y91_L0.7561.00
47_V147_D0.7531.00
54_H82_S0.7491.00
40_G123_A0.7471.00
22_S26_K0.7421.00
34_V123_A0.7411.00
30_I146_A0.7391.00
92_T96_K0.7351.00
4_T34_V0.7321.00
107_K111_R0.7201.00
7_P137_R0.7201.00
126_R157_H0.7171.00
53_V58_V0.7031.00
144_K147_D0.7011.00
115_S118_I0.7001.00
80_G87_A0.6971.00
38_P116_V0.6961.00
1_I35_V0.6951.00
42_I127_L0.6921.00
127_L157_H0.6901.00
150_V154_C0.6891.00
145_K148_K0.6861.00
46_S62_S0.6841.00
122_H125_G0.6841.00
80_G90_L0.6821.00
103_T107_K0.6801.00
20_Y24_K0.6721.00
55_D121_E0.6701.00
17_Q22_S0.6681.00
123_A126_R0.6671.00
45_V150_V0.6671.00
18_K22_S0.6661.00
102_L106_Q0.6601.00
87_A90_L0.6581.00
5_E23_G0.6581.00
82_S92_T0.6571.00
80_G83_G0.6541.00
81_D84_Y0.6511.00
32_V47_V0.6511.00
64_L67_L0.6431.00
10_R13_D0.6401.00
140_N146_A0.6341.00
144_K148_K0.6301.00
16_R20_Y0.6291.00
63_G67_L0.6261.00
20_Y23_G0.6241.00
86_G92_T0.6201.00
112_R116_V0.6171.00
100_G103_T0.6151.00
79_L91_L0.6141.00
10_R28_H0.6121.00
149_I152_A0.6111.00
133_I139_R0.6111.00
40_G44_H0.6051.00
23_G28_H0.6031.00
98_R102_L0.6031.00
25_K28_H0.6021.00
91_L94_Y0.6001.00
54_H83_G0.5941.00
17_Q23_G0.5921.00
81_D121_E0.5871.00
56_S83_G0.5861.00
94_Y110_N0.5831.00
141_R145_K0.5821.00
9_Q137_R0.5791.00
42_I154_C0.5781.00
135_K139_R0.5721.00
143_L147_D0.5631.00
131_F157_H0.5601.00
12_K16_R0.5581.00
18_K21_Y0.5571.00
129_R135_K0.5561.00
141_R146_A0.5521.00
125_G129_R0.5481.00
6_I150_V0.5421.00
112_R115_S0.5371.00
97_P102_L0.5371.00
132_R139_R0.5361.00
22_S25_K0.5351.00
121_E125_G0.5351.00
129_R134_L0.5331.00
22_S27_R0.5321.00
133_I138_Y0.5301.00
90_L94_Y0.5281.00
104_E107_K0.5271.00
128_K135_K0.5271.00
16_R19_E0.5261.00
80_G88_E0.5251.00
33_Q59_L0.5251.00
48_G147_D0.5241.00
137_R140_N0.5241.00
81_D86_G0.5231.00
90_L95_K0.5211.00
105_E109_F0.5211.00
107_K110_N0.5191.00
140_N143_L0.5171.00
24_K28_H0.5151.00
55_D117_R0.5131.00
147_D150_V0.5131.00
127_L150_V0.5131.00
59_L87_A0.5101.00
69_E89_K0.5071.00
153_C156_L0.5041.00
11_P16_R0.5031.00
123_A131_F0.5021.00
72_L76_L0.5011.00
59_L62_S0.5001.00
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  
4u7bA 2 0.9367 20.6 0.901 Contact Map
1musA 2 0.9747 14.3 0.908 Contact Map
4fw1A 2 0.8354 14.3 0.908 Contact Map
4cf8A 2 0.8101 11.6 0.911 Contact Map
3kksA 2 0.7722 10.4 0.913 Contact Map
4mq3A 1 0.7722 10 0.914 Contact Map
3l3uA 2 0.8101 10 0.914 Contact Map
1ex4A 5 0.8038 9.4 0.915 Contact Map
1cxqA 2 0.8101 9.1 0.916 Contact Map
4fw2A 2 0.7848 8.8 0.916 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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