GREMLIN Database
YDEA - Uncharacterized protease YdeA
UniProt: P96658 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 197 (168)
Sequences: 15395 (10464)
Seq/√Len: 807.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
142_R164_M2.9151.00
5_L62_F2.7101.00
40_I50_S2.7041.00
3_K31_S2.6321.00
160_L163_E2.5121.00
5_L35_V2.4681.00
33_H62_F2.4111.00
113_H144_K2.3781.00
113_H143_D2.2211.00
33_H53_Y2.1341.00
3_K33_H2.1171.00
110_L115_H2.1041.00
111_N131_P2.0871.00
168_D172_N2.0141.00
142_R160_L1.9921.00
12_Y43_S1.8531.00
21_A25_N1.8431.00
88_F145_N1.7861.00
23_A162_L1.7791.00
113_H146_L1.7731.00
87_A92_I1.6911.00
88_F94_I1.6271.00
42_S48_K1.6021.00
163_E168_D1.5891.00
40_I48_K1.5821.00
37_L77_N1.5771.00
114_S143_D1.5601.00
54_I57_L1.5571.00
93_P164_M1.5481.00
142_R147_V1.5441.00
114_S135_F1.4931.00
96_A148_T1.4661.00
30_W165_I1.4401.00
83_F87_A1.4021.00
14_D18_V1.3961.00
95_A161_I1.3801.00
113_H145_N1.3731.00
6_F66_V1.3691.00
56_G79_K1.3661.00
81_L85_K1.3621.00
27_R162_L1.3421.00
166_D170_P1.3331.00
139_Q156_E1.3311.00
82_H86_T1.3301.00
96_A104_L1.3171.00
4_A64_L1.3041.00
114_S134_S1.3031.00
64_L93_P1.2971.00
86_T90_K1.2951.00
6_F21_A1.2871.00
115_H132_I1.2831.00
147_V164_M1.2781.00
88_F146_L1.2731.00
78_K82_H1.2721.00
160_L164_M1.2681.00
82_H85_K1.2681.00
48_K52_D1.2581.00
142_R145_N1.2371.00
95_A157_F1.2251.00
10_D42_S1.2241.00
125_D134_S1.2101.00
79_K82_H1.2081.00
8_I34_T1.1981.00
167_F170_P1.1981.00
76_D106_K1.1941.00
22_S26_Q1.1931.00
53_Y57_L1.1891.00
105_A132_I1.1751.00
88_F109_L1.1741.00
91_N94_I1.1571.00
114_S136_V1.1551.00
91_N145_N1.1541.00
114_S133_S1.1401.00
17_G34_T1.1401.00
12_Y17_G1.1341.00
124_K128_Q1.1321.00
15_W19_Y1.1181.00
19_Y22_S1.1181.00
129_Y132_I1.1091.00
85_K89_Q1.1011.00
19_Y155_I1.1001.00
114_S141_V1.0991.00
30_W166_D1.0921.00
140_A160_L1.0881.00
108_G111_N1.0821.00
24_L158_T1.0811.00
93_P165_I1.0791.00
102_D124_K1.0721.00
81_L107_N1.0681.00
86_T89_Q1.0621.00
21_A34_T1.0591.00
126_Y136_V1.0561.00
63_N92_I1.0541.00
66_V157_F1.0451.00
72_S75_N1.0371.00
7_L80_L1.0151.00
88_F91_N1.0121.00
12_Y49_T1.0021.00
35_V53_Y1.0021.00
118_N151_G1.0011.00
93_P145_N0.9931.00
106_K128_Q0.9821.00
8_I17_G0.9811.00
147_V157_F0.9711.00
114_S138_K0.9711.00
14_D47_F0.9671.00
99_G121_Y0.9591.00
149_A157_F0.9541.00
30_W162_L0.9521.00
67_M84_V0.9521.00
37_L79_K0.9481.00
37_L55_I0.9391.00
36_S51_V0.9381.00
40_I51_V0.9351.00
22_S25_N0.9281.00
35_V58_E0.9261.00
122_L129_Y0.9251.00
6_F32_V0.9241.00
19_Y158_T0.9191.00
101_V117_G0.9111.00
87_A90_K0.9021.00
135_F138_K0.8901.00
53_Y58_E0.8861.00
147_V161_I0.8711.00
67_M100_A0.8701.00
23_A158_T0.8681.00
81_L106_K0.8681.00
116_T141_V0.8661.00
8_I12_Y0.8621.00
64_L165_I0.8591.00
20_L154_P0.8571.00
20_L66_V0.8541.00
65_L87_A0.8451.00
62_F87_A0.8451.00
136_V139_Q0.8441.00
4_A30_W0.8441.00
19_Y154_P0.8411.00
66_V95_A0.8381.00
93_P147_V0.8281.00
96_A101_V0.8261.00
83_F86_T0.8141.00
23_A26_Q0.8121.00
67_M80_L0.8121.00
67_M103_F0.8111.00
122_L136_V0.7931.00
155_I159_N0.7801.00
14_D43_S0.7771.00
21_A32_V0.7721.00
17_G21_A0.7711.00
29_D166_D0.7671.00
85_K107_N0.7621.00
6_F17_G0.7611.00
30_W64_L0.7561.00
33_H52_D0.7461.00
14_D45_G0.7451.00
10_D38_D0.7421.00
88_F113_H0.7421.00
106_K129_Y0.7421.00
163_E171_E0.7391.00
39_P51_V0.7371.00
154_P158_T0.7351.00
147_V160_L0.7281.00
97_I154_P0.7271.00
136_V141_V0.7251.00
12_Y68_I0.7251.00
124_K127_K0.7241.00
53_Y59_P0.7231.00
81_L84_V0.7201.00
134_S137_E0.7201.00
121_Y124_K0.7161.00
64_L161_I0.7161.00
122_L126_Y0.7131.00
23_A159_N0.7121.00
5_L58_E0.7091.00
64_L95_A0.7091.00
77_N80_L0.7091.00
125_D129_Y0.6931.00
11_Q42_S0.6881.00
96_A100_A0.6831.00
93_P161_I0.6781.00
4_A24_L0.6781.00
104_L107_N0.6751.00
61_N90_K0.6701.00
21_A47_F0.6571.00
94_I145_N0.6561.00
84_V103_F0.6541.00
24_L161_I0.6531.00
6_F20_L0.6491.00
25_N32_V0.6451.00
39_P50_S0.6431.00
133_S136_V0.6421.00
169_T172_N0.6401.00
78_K81_L0.6371.00
59_P86_T0.6361.00
62_F65_L0.6321.00
29_D170_P0.6291.00
81_L103_F0.6281.00
105_A110_L0.6271.00
30_W63_N0.6271.00
97_I157_F0.6271.00
7_L65_L0.6261.00
94_I109_L0.6191.00
117_G135_F0.6151.00
119_F151_G0.6131.00
20_L24_L0.6091.00
84_V107_N0.6041.00
16_E69_G0.6031.00
35_V62_F0.6021.00
156_E159_N0.6001.00
123_W127_K0.5931.00
118_N152_T0.5891.00
13_A44_I0.5861.00
24_L30_W0.5861.00
94_I146_L0.5851.00
38_D54_I0.5841.00
125_D128_Q0.5821.00
3_K63_N0.5741.00
19_Y23_A0.5741.00
58_E62_F0.5711.00
111_N132_I0.5711.00
122_L135_F0.5691.00
140_A147_V0.5631.00
7_L35_V0.5591.00
11_Q71_D0.5571.00
78_K85_K0.5511.00
102_D121_Y0.5491.00
94_I104_L0.5491.00
85_K109_L0.5491.00
156_E160_L0.5481.00
5_L33_H0.5461.00
14_D49_T0.5421.00
42_S52_D0.5421.00
95_A147_V0.5421.00
71_D74_S0.5411.00
8_I41_V0.5411.00
5_L83_F0.5351.00
65_L83_F0.5311.00
36_S41_V0.5311.00
58_E83_F0.5301.00
134_S139_Q0.5231.00
13_A22_S0.5221.00
35_V83_F0.5211.00
138_K156_E0.5181.00
15_W22_S0.5171.00
8_I51_V0.5161.00
51_V54_I0.5121.00
123_W136_V0.5111.00
17_G68_I0.5111.00
67_M104_L0.5101.00
145_N164_M0.5091.00
14_D44_I0.5081.00
16_E152_T0.5001.00
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  
3mgkA 2 0.9848 100 0.181 Contact Map
3er6A 2 0.9289 100 0.192 Contact Map
3efeA 2 0.9797 100 0.199 Contact Map
3graA 2 0.8934 100 0.208 Contact Map
3ewnA 2 0.9848 100 0.215 Contact Map
3noqA 2 0.9797 100 0.224 Contact Map
3bhnA 2 0.9645 100 0.227 Contact Map
2rk3A 2 0.9036 100 0.238 Contact Map
4e08A 2 0.9036 100 0.242 Contact Map
3f5dA 2 0.9695 100 0.243 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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