GREMLIN Database
DEGU - Transcriptional regulatory protein DegU
UniProt: P13800 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 229 (196)
Sequences: 79429 (56928)
Seq/√Len: 4066.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
16_R34_E3.7941.00
16_R36_D3.3261.00
20_K34_E3.3131.00
9_I41_A2.7591.00
42_A70_Q2.7551.00
39_D61_N2.5391.00
38_G62_V2.4181.00
62_V70_Q2.3261.00
46_E74_L2.2911.00
37_D61_N2.2411.00
22_I110_A2.1301.00
26_E114_I2.1031.00
20_K24_D2.0431.00
5_N30_E2.0391.00
35_G44_I1.9851.00
195_K198_K1.9321.00
33_A44_I1.9151.00
92_V112_T1.8961.00
58_N86_H1.8891.00
55_M67_A1.8391.00
36_D40_E1.8181.00
37_D40_E1.7761.00
68_T80_V1.7521.00
69_K98_T1.7081.00
44_I48_Y1.7061.00
7_V35_G1.7021.00
33_A48_Y1.6981.00
70_Q74_L1.6951.00
33_A50_P1.6931.00
82_I100_A1.6601.00
82_I95_A1.6551.00
169_R172_E1.6451.00
5_N33_A1.6431.00
137_N140_R1.6261.00
183_N198_K1.6141.00
72_V101_R1.6061.00
89_E109_D1.6011.00
38_G67_A1.5541.00
62_V66_E1.5291.00
63_N66_E1.5241.00
181_K189_S1.5151.00
102_G116_A1.4901.00
4_V121_A1.4871.00
175_Q179_D1.4851.00
45_V71_L1.4831.00
200_H203_N1.4791.00
182_S185_G1.4651.00
23_L117_V1.4541.00
44_I47_H1.4471.00
176_M189_S1.4411.00
53_V78_S1.4361.00
86_H91_Y1.4051.00
70_Q73_E1.3951.00
13_Q36_D1.3841.00
39_D62_V1.3711.00
52_V117_V1.3621.00
68_T82_I1.3531.00
81_I120_V1.3331.00
170_E207_K1.3271.00
5_N48_Y1.3121.00
42_A67_A1.3041.00
101_R123_G1.2971.00
66_E69_K1.2941.00
137_N141_R1.2611.00
101_R120_V1.2591.00
57_I65_V1.2571.00
44_I50_P1.2531.00
29_F118_K1.2321.00
42_A62_V1.2231.00
9_I59_M1.2191.00
185_G189_S1.2151.00
65_V95_A1.2001.00
10_D16_R1.1991.00
75_Y78_S1.1871.00
43_R47_H1.1711.00
94_H98_T1.1701.00
171_C175_Q1.1621.00
26_E118_K1.1611.00
35_G41_A1.1391.00
114_I118_K1.1331.00
55_M68_T1.1301.00
11_D56_D1.1251.00
7_V50_P1.1171.00
65_V94_H1.1151.00
40_E43_R1.1071.00
6_I29_F1.0971.00
40_E44_I1.0961.00
88_D91_Y1.0921.00
57_I82_I1.0891.00
7_V41_A1.0731.00
39_D43_R1.0591.00
176_M180_G1.0571.00
173_V177_L1.0531.00
195_K199_N1.0501.00
156_Y163_L1.0431.00
52_V121_A1.0331.00
134_N137_N1.0301.00
199_N202_S1.0271.00
184_R194_E1.0211.00
97_K118_K1.0201.00
35_G40_E1.0111.00
7_V44_I1.0091.00
115_E119_V1.0081.00
90_N94_H0.9961.00
42_A46_E0.9941.00
89_E93_T0.9841.00
172_E175_Q0.9831.00
209_N212_D0.9791.00
181_K185_G0.9771.00
112_T115_E0.9681.00
69_K94_H0.9651.00
92_V105_L0.9641.00
176_M181_K0.9621.00
28_T118_K0.9571.00
8_I19_V0.9541.00
93_T97_K0.9541.00
53_V71_L0.9531.00
168_R172_E0.9481.00
17_E34_E0.9431.00
41_A67_A0.9421.00
41_A45_V0.9221.00
14_L18_G0.9181.00
13_Q17_E0.9091.00
20_K31_V0.9051.00
57_I63_N0.8971.00
5_N51_D0.8961.00
9_I35_G0.8931.00
65_V98_T0.8921.00
134_N138_E0.8921.00
172_E176_M0.8871.00
7_V33_A0.8861.00
196_T200_H0.8831.00
4_V29_F0.8831.00
158_E163_L0.8811.00
19_V83_L0.8771.00
43_R46_E0.8671.00
55_M80_V0.8641.00
68_T98_T0.8611.00
136_V139_F0.8581.00
89_E92_V0.8441.00
9_I53_V0.8431.00
176_M186_I0.8421.00
201_V205_L0.8361.00
55_M82_I0.8351.00
7_V45_V0.8331.00
53_V80_V0.8331.00
81_I116_A0.8311.00
199_N203_N0.8301.00
13_Q16_R0.8291.00
68_T100_A0.8271.00
155_V172_E0.8261.00
79_K101_R0.8251.00
54_I113_L0.8181.00
194_E198_K0.8151.00
29_F114_I0.8081.00
15_F108_M0.8061.00
87_D105_L0.8061.00
185_G188_E0.8061.00
138_E141_R0.8041.00
134_N139_F0.8001.00
66_E70_Q0.7971.00
94_H97_K0.7971.00
184_R188_E0.7951.00
54_I117_V0.7931.00
21_R25_F0.7931.00
91_Y94_H0.7921.00
120_V123_G0.7911.00
17_E20_K0.7891.00
198_K201_V0.7881.00
67_A71_L0.7831.00
57_I91_Y0.7821.00
5_N50_P0.7811.00
110_A114_I0.7771.00
136_V140_R0.7661.00
203_N206_Q0.7661.00
112_T116_A0.7621.00
135_L138_E0.7621.00
31_V34_E0.7461.00
167_T207_K0.7451.00
69_K73_E0.7451.00
119_V122_E0.7431.00
176_M179_D0.7421.00
57_I86_H0.7411.00
205_L210_V0.7381.00
195_K202_S0.7341.00
45_V78_S0.7321.00
8_I31_V0.7241.00
17_E21_R0.7241.00
45_V50_P0.7231.00
135_L139_F0.7201.00
45_V75_Y0.7181.00
83_L108_M0.7161.00
59_M67_A0.7111.00
38_G42_A0.7081.00
38_G61_N0.7051.00
54_I83_L0.7041.00
124_G128_H0.7031.00
19_V113_L0.6861.00
62_V67_A0.6841.00
109_D112_T0.6841.00
90_N111_D0.6811.00
202_S206_Q0.6801.00
93_T111_D0.6801.00
58_N85_I0.6771.00
30_E33_A0.6751.00
174_L177_L0.6751.00
155_V171_C0.6741.00
158_E161_R0.6711.00
22_I114_I0.6701.00
9_I67_A0.6661.00
121_A124_G0.6631.00
96_L116_A0.6601.00
159_I209_N0.6591.00
10_D59_M0.6561.00
119_V124_G0.6561.00
72_V79_K0.6551.00
45_V53_V0.6471.00
79_K123_G0.6461.00
108_M113_L0.6441.00
134_N141_R0.6421.00
42_A74_L0.6381.00
46_E70_Q0.6371.00
18_G22_I0.6361.00
132_T136_V0.6301.00
135_L140_R0.6261.00
38_G59_M0.6251.00
177_L201_V0.6251.00
71_L80_V0.6221.00
136_V141_R0.6211.00
116_A120_V0.6201.00
8_I20_K0.6191.00
16_R20_K0.6191.00
24_D31_V0.6161.00
71_L76_P0.6151.00
97_K115_E0.6131.00
42_A45_V0.6111.00
81_I102_G0.6091.00
77_E127_L0.6091.00
102_G119_V0.6051.00
169_R200_H0.6041.00
111_D115_E0.5971.00
183_N187_G0.5921.00
23_L29_F0.5921.00
89_E111_D0.5921.00
134_N140_R0.5911.00
4_V125_S0.5881.00
6_I52_V0.5881.00
12_H85_I0.5881.00
54_I81_I0.5881.00
132_T135_L0.5841.00
84_S92_V0.5841.00
8_I34_E0.5831.00
79_K121_A0.5811.00
56_D106_K0.5791.00
92_V109_D0.5791.00
26_E29_F0.5781.00
192_I197_V0.5781.00
183_N194_E0.5771.00
6_I23_L0.5761.00
118_K122_E0.5761.00
159_I211_N0.5741.00
77_E126_Y0.5651.00
182_S186_I0.5641.00
49_H75_Y0.5621.00
180_G189_S0.5581.00
167_T170_E0.5561.00
95_A100_A0.5511.00
133_H136_V0.5501.00
159_I162_P0.5491.00
130_K133_H0.5481.00
65_V91_Y0.5481.00
133_H137_N0.5461.00
46_E75_Y0.5441.00
108_M112_T0.5401.00
68_T72_V0.5401.00
22_I26_E0.5371.00
12_H15_F0.5361.00
115_E118_K0.5331.00
55_M59_M0.5321.00
4_V51_D0.5261.00
191_F194_E0.5261.00
181_K186_I0.5251.00
166_L170_E0.5241.00
79_K127_L0.5231.00
90_N93_T0.5231.00
25_F28_T0.5201.00
55_M71_L0.5191.00
11_D84_S0.5181.00
179_D189_S0.5171.00
177_L180_G0.5161.00
15_F18_G0.5111.00
93_T96_L0.5081.00
37_D59_M0.5061.00
174_L178_A0.5001.00
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  
4gvpA 1 0.9083 100 0.21 Contact Map
1a04A 1 0.8952 100 0.216 Contact Map
1yioA 1 0.8646 100 0.228 Contact Map
3c3wA 2 0.9214 100 0.233 Contact Map
4ldzA 2 0.8515 100 0.249 Contact Map
4hyeA 2 0.8734 100 0.265 Contact Map
1ys7A 2 0.9432 100 0.265 Contact Map
3kloA 2 0.9345 100 0.268 Contact Map
3q9sA 1 0.8777 100 0.277 Contact Map
4b09A 2 0.8734 100 0.281 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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