GREMLIN Database
KAPD - Probable 3'-5' exonuclease KapD
UniProt: O05231 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 205 (165)
Sequences: 8432 (5683)
Seq/√Len: 442.4

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_T167_L2.8111.00
141_L146_K2.7621.00
31_E161_K2.6641.00
53_K78_R2.6301.00
98_I101_G2.3661.00
99_T128_L2.2881.00
63_K69_T2.2041.00
34_I86_L2.1551.00
51_R75_E2.0901.00
48_S77_M2.0811.00
48_S85_K2.0731.00
62_C66_L2.0731.00
69_T72_Q2.0691.00
5_S38_I2.0511.00
57_K70_Q1.9521.00
58_L73_V1.9021.00
136_F151_Y1.8141.00
143_G146_K1.7741.00
28_E51_R1.7381.00
11_F29_I1.7021.00
31_E47_S1.7011.00
77_M82_F1.6981.00
70_Q74_D1.6351.00
60_K64_S1.6171.00
148_A168_T1.5821.00
148_A153_D1.5501.00
48_S82_F1.5371.00
78_R81_D1.5201.00
50_V82_F1.5031.00
5_S36_K1.5021.00
105_M125_M1.5011.00
33_G166_A1.4921.00
7_L34_I1.4571.00
13_F103_M1.4321.00
36_K44_E1.4271.00
61_R64_S1.4211.00
79_F83_I1.4151.00
47_S161_K1.4141.00
8_I169_A1.4081.00
35_V163_L1.4071.00
5_S94_N1.4051.00
175_L178_Q1.4011.00
58_L63_K1.3791.00
28_E111_N1.3761.00
42_V45_T1.3721.00
49_Y72_Q1.3681.00
37_S40_D1.3661.00
101_G125_M1.3561.00
47_S163_L1.3501.00
145_W159_H1.3391.00
175_L179_D1.3381.00
139_R150_E1.3341.00
35_V166_A1.3341.00
136_F176_V1.3291.00
7_L94_N1.3271.00
58_L70_Q1.2891.00
84_R117_I1.2721.00
17_D20_Y1.2491.00
158_T164_D1.2361.00
46_F85_K1.2341.00
28_E53_K1.2311.00
36_K94_N1.2261.00
110_Q114_F1.2241.00
111_N114_F1.2221.00
11_F108_L1.2211.00
32_A86_L1.2081.00
79_F111_N1.1931.00
37_S42_V1.1841.00
28_E114_F1.1681.00
77_M81_D1.1671.00
49_Y161_K1.1631.00
28_E54_K1.1551.00
36_K89_L1.1521.00
30_I66_L1.1471.00
155_G168_T1.1431.00
48_S76_G1.1411.00
44_E89_L1.1331.00
77_M85_K1.1151.00
62_C65_F1.0871.00
155_G159_H1.0861.00
20_Y27_P1.0791.00
132_Y147_A1.0751.00
153_D171_K1.0731.00
167_L171_K1.0701.00
30_I58_L1.0681.00
129_S133_K1.0651.00
7_L36_K1.0581.00
128_L173_F1.0561.00
68_I72_Q1.0471.00
170_Y174_K1.0281.00
97_I173_F1.0211.00
166_A170_Y1.0201.00
132_Y142_T1.0191.00
27_P54_K1.0111.00
6_L173_F1.0061.00
147_A172_L0.9941.00
63_K70_Q0.9911.00
136_F179_D0.9901.00
159_H164_D0.9891.00
111_N115_N0.9881.00
87_N112_C0.9801.00
161_K164_D0.9691.00
15_M27_P0.9691.00
135_F176_V0.9671.00
27_P107_V0.9621.00
52_P73_V0.9401.00
86_L90_D0.9341.00
49_Y76_G0.9331.00
109_K119_F0.9301.00
60_K63_K0.9241.00
37_S170_Y0.9231.00
68_I73_V0.9231.00
61_R65_F0.9181.00
46_F89_L0.9121.00
129_S142_T0.9111.00
51_R78_R0.9111.00
29_I50_V0.9051.00
53_K80_E0.8961.00
105_M109_K0.8801.00
72_Q76_G0.8781.00
9_I98_I0.8781.00
33_G162_A0.8721.00
151_Y172_L0.8701.00
33_G47_S0.8641.00
8_I170_Y0.8591.00
110_Q113_M0.8561.00
9_I96_T0.8521.00
37_S174_K0.8521.00
164_D167_L0.8441.00
76_G82_F0.8441.00
45_T163_L0.8391.00
85_K88_E0.8371.00
84_R88_E0.8341.00
83_I112_C0.8291.00
80_E115_N0.8251.00
171_K174_K0.8211.00
59_T62_C0.8121.00
132_Y176_V0.8111.00
58_L62_C0.8081.00
49_Y68_I0.8021.00
37_S41_E0.8011.00
148_A155_G0.7971.00
163_L167_L0.7891.00
86_L89_L0.7841.00
160_H165_D0.7741.00
38_I43_V0.7721.00
95_S126_R0.7681.00
153_D172_L0.7671.00
138_D142_T0.7631.00
72_Q75_E0.7611.00
8_I166_A0.7601.00
70_Q73_V0.7541.00
9_I86_L0.7491.00
34_I89_L0.7411.00
82_F86_L0.7351.00
32_A50_V0.7341.00
88_E91_P0.7291.00
148_A172_L0.7261.00
151_Y176_V0.7211.00
30_I62_C0.7181.00
33_G163_L0.7081.00
171_K175_L0.7061.00
18_G106_K0.7051.00
83_I87_N0.7041.00
143_G159_H0.6971.00
35_V170_Y0.6921.00
144_L172_L0.6871.00
144_L169_A0.6841.00
28_E79_F0.6831.00
147_A151_Y0.6831.00
46_F86_L0.6811.00
29_I107_V0.6801.00
136_F150_E0.6801.00
109_K120_P0.6801.00
42_V167_L0.6791.00
148_A159_H0.6781.00
36_K43_V0.6771.00
119_F122_K0.6771.00
168_T171_K0.6751.00
31_E163_L0.6721.00
32_A82_F0.6691.00
173_F177_E0.6661.00
8_I173_F0.6641.00
132_Y136_F0.6611.00
79_F115_N0.6601.00
79_F82_F0.6561.00
9_I90_D0.6551.00
18_G107_V0.6541.00
80_E84_R0.6531.00
100_W103_M0.6490.99
151_Y179_D0.6480.99
29_I111_N0.6460.99
71_K74_D0.6410.99
12_E165_D0.6370.99
63_K72_Q0.6360.99
35_V45_T0.6310.99
91_P94_N0.6280.99
35_V42_V0.6260.99
52_P79_F0.6210.99
102_N106_K0.6190.99
16_P61_R0.6180.99
155_G164_D0.6170.99
82_F85_K0.6080.99
48_S86_L0.6060.99
146_K149_E0.6040.99
11_F107_V0.6020.99
127_D131_E0.6000.99
16_P59_T0.5970.99
99_T147_A0.5950.99
15_M107_V0.5870.99
128_L147_A0.5820.99
172_L175_L0.5810.99
156_T164_D0.5810.99
121_F124_E0.5800.99
51_R54_K0.5790.99
133_K142_T0.5780.99
151_Y175_L0.5770.99
85_K89_L0.5740.99
132_Y150_E0.5730.99
127_D130_L0.5730.99
128_L132_Y0.5730.99
174_K178_Q0.5700.99
163_L166_A0.5670.99
102_N130_L0.5660.99
166_A169_A0.5640.99
27_P59_T0.5550.98
50_V79_F0.5550.98
142_T150_E0.5550.98
17_D27_P0.5520.98
30_I73_V0.5510.98
145_W155_G0.5360.98
136_F142_T0.5350.98
145_W149_E0.5300.98
15_M62_C0.5290.98
13_F107_V0.5290.98
131_E176_V0.5280.98
83_I111_N0.5200.98
9_I108_L0.5160.97
40_D177_E0.5160.97
169_A172_L0.5150.97
129_S132_Y0.5150.97
117_I120_P0.5140.97
29_I79_F0.5140.97
19_K110_Q0.5130.97
87_N117_I0.5120.97
156_T171_K0.5110.97
57_K60_K0.5040.97
98_I169_A0.5000.97
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  
1zbuA 1 0.9902 100 0.241 Contact Map
4qozB 1 0.9805 100 0.245 Contact Map
3cg7A 2 0.9854 100 0.261 Contact Map
1w0hA 1 0.9122 100 0.266 Contact Map
2xriA 1 0.8829 100 0.277 Contact Map
2guiA 1 0.8341 100 0.333 Contact Map
3mxmB 2 0.9122 100 0.338 Contact Map
4rg8A 1 0.922 100 0.341 Contact Map
2qxfA 1 0.9317 100 0.343 Contact Map
2p1jA 2 0.8341 100 0.348 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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