GREMLIN Database
KDPE - KDP operon transcriptional regulatory protein KdpE
UniProt: P21866 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10517
Length: 225 (198)
Sequences: 76539 (55286)
Seq/√Len: 3929.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
14_R30_E3.6371.00
14_R32_E3.0511.00
18_R30_E2.8861.00
7_V37_G2.6601.00
29_F46_P2.6511.00
34_L58_G2.6011.00
35_Q57_D2.5911.00
33_T57_D2.5251.00
42_A70_W2.3931.00
38_L66_D2.3391.00
58_G66_D2.2271.00
3_N29_F2.1441.00
3_N27_R2.1241.00
190_H193_R2.0531.00
18_R22_E1.9981.00
20_A105_I1.9411.00
51_L63_F1.9301.00
87_K107_E1.9271.00
32_E36_R1.8831.00
173_Q193_R1.8601.00
31_A40_E1.8521.00
155_I158_R1.8471.00
33_T36_R1.8181.00
24_D109_Q1.8141.00
54_G81_R1.8031.00
5_L31_A1.7761.00
84_E104_G1.7501.00
59_D62_E1.7431.00
64_I75_V1.7071.00
77_V90_A1.6791.00
77_V95_A1.6401.00
29_F40_E1.6001.00
195_Y198_H1.5951.00
68_R96_D1.5571.00
133_D146_G1.5431.00
66_D70_W1.5421.00
156_E202_K1.5401.00
66_D69_Q1.5401.00
40_E44_R1.5261.00
34_L63_F1.5191.00
161_A165_N1.5191.00
58_G62_E1.5021.00
21_L112_L1.4701.00
38_L63_F1.4671.00
64_I77_V1.4611.00
51_L64_I1.4271.00
53_L77_V1.4271.00
29_F44_R1.4111.00
48_L112_L1.4031.00
97_D111_R1.3961.00
162_V179_Q1.3801.00
40_E43_T1.3701.00
62_E65_R1.3621.00
49_I73_V1.3461.00
8_E14_R1.3441.00
81_R86_D1.3421.00
41_A67_L1.3311.00
130_K135_T1.3291.00
7_V55_L1.3281.00
76_I115_A1.3251.00
172_T175_Q1.2941.00
31_A37_G1.2771.00
35_Q58_G1.2741.00
96_D118_R1.2711.00
92_D113_R1.2621.00
171_L179_Q1.2531.00
40_E46_P1.2511.00
65_R93_A1.2471.00
38_L58_G1.2431.00
3_N44_R1.2401.00
142_V149_E1.2321.00
39_L43_T1.2291.00
11_Q32_E1.2021.00
53_L61_I1.1991.00
162_V166_N1.1981.00
9_D52_D1.1981.00
35_Q39_L1.1901.00
96_D115_A1.1741.00
26_M113_R1.1681.00
5_L37_G1.1631.00
36_R39_L1.1581.00
83_E86_D1.1501.00
36_R40_E1.1351.00
65_R89_A1.1151.00
5_L46_P1.1121.00
204_E207_P1.1101.00
191_Y195_Y1.0871.00
4_V26_M1.0871.00
48_L116_L1.0851.00
24_D113_R1.0831.00
61_I89_A1.0761.00
162_V171_L1.0751.00
84_E88_I1.0721.00
137_D140_A1.0711.00
157_F161_A1.0691.00
194_I197_G1.0681.00
61_I90_A1.0571.00
25_G113_R1.0501.00
190_H194_I1.0481.00
136_V164_L1.0421.00
135_T144_H1.0311.00
174_R189_S1.0261.00
37_G41_A1.0241.00
7_V49_I1.0201.00
51_L75_V1.0091.00
89_A93_A1.0081.00
162_V176_L0.9961.00
109_Q113_R0.9941.00
17_L78_L0.9941.00
61_I93_A0.9931.00
196_M200_R0.9871.00
107_E110_A0.9841.00
5_L41_A0.9821.00
175_Q179_Q0.9721.00
158_R161_A0.9641.00
49_I67_L0.9571.00
110_A114_V0.9541.00
37_G63_F0.9481.00
6_I28_V0.9411.00
85_S89_A0.9371.00
11_Q14_R0.9321.00
53_L59_D0.9201.00
11_Q15_R0.9151.00
55_L63_F0.9141.00
62_E66_D0.9121.00
5_L40_E0.9111.00
31_A36_R0.9111.00
6_I17_L0.9091.00
39_L42_A0.9081.00
15_R30_E0.9001.00
51_L77_V0.8991.00
38_L42_A0.8941.00
3_N46_P0.8921.00
89_A92_D0.8911.00
171_L175_Q0.8911.00
7_V31_A0.8881.00
17_L108_L0.8881.00
12_A16_F0.8871.00
136_V157_F0.8861.00
88_I92_D0.8821.00
18_R28_V0.8791.00
138_L161_A0.8751.00
154_P158_R0.8731.00
50_I108_L0.8731.00
64_I95_A0.8681.00
153_T202_K0.8651.00
64_I93_A0.8651.00
115_A118_R0.8621.00
26_M109_Q0.8601.00
87_K100_S0.8571.00
76_I111_R0.8511.00
107_E111_R0.8431.00
141_R158_R0.8391.00
189_S193_R0.8381.00
53_L86_D0.8381.00
144_H149_E0.8371.00
63_F67_L0.8321.00
34_L38_L0.8301.00
174_R178_N0.8271.00
50_I78_L0.8101.00
84_E87_K0.8081.00
41_A73_V0.8071.00
88_I106_G0.8061.00
19_T23_G0.8011.00
198_H201_Q0.7991.00
54_G80_A0.7981.00
49_I75_V0.7971.00
190_H197_G0.7951.00
200_R205_Q0.7901.00
65_R69_Q0.7891.00
91_L111_R0.7871.00
15_R18_R0.7871.00
82_S100_S0.7741.00
105_I109_Q0.7721.00
6_I18_R0.7661.00
13_I103_F0.7651.00
76_I97_D0.7641.00
53_L81_R0.7641.00
8_E55_L0.7641.00
197_G201_Q0.7631.00
114_V117_R0.7621.00
128_L135_T0.7551.00
38_L41_A0.7491.00
58_G63_F0.7481.00
103_F108_L0.7421.00
85_S106_G0.7421.00
165_N179_Q0.7391.00
34_L57_D0.7371.00
193_R196_M0.7341.00
7_V63_F0.7311.00
41_A46_P0.7241.00
144_H147_E0.7141.00
86_D89_A0.7121.00
6_I30_E0.7121.00
173_Q189_S0.7101.00
84_E106_G0.7081.00
130_K133_D0.7061.00
3_N47_D0.6871.00
15_R19_T0.6871.00
159_L163_L0.6841.00
141_R157_F0.6841.00
79_S87_K0.6841.00
74_P96_D0.6791.00
50_I112_L0.6781.00
175_Q178_N0.6781.00
51_L55_L0.6751.00
92_D110_A0.6731.00
74_P116_L0.6711.00
104_G107_E0.6711.00
21_L26_M0.6651.00
90_A95_A0.6631.00
42_A66_D0.6631.00
16_F20_A0.6611.00
116_L119_H0.6551.00
194_I198_H0.6521.00
10_E13_I0.6521.00
133_D145_R0.6481.00
67_L75_V0.6471.00
145_R206_D0.6461.00
78_L103_F0.6451.00
41_A49_I0.6381.00
50_I76_I0.6371.00
134_V145_R0.6361.00
14_R18_R0.6361.00
187_E192_L0.6351.00
4_V21_L0.6331.00
162_V165_N0.6291.00
114_V119_H0.6261.00
163_L196_M0.6241.00
10_E80_A0.6231.00
34_L55_L0.6221.00
22_E27_R0.6141.00
87_K104_G0.6121.00
20_A109_Q0.6121.00
41_A71_S0.6071.00
131_F134_V0.6031.00
106_G110_A0.6021.00
41_A63_F0.6011.00
111_R115_A0.6001.00
131_F164_L0.5991.00
68_R71_S0.5981.00
61_I86_D0.5981.00
22_E28_V0.5961.00
130_K134_V0.5921.00
53_L90_A0.5911.00
4_V48_L0.5911.00
119_H123_T0.5901.00
153_T156_E0.5841.00
128_L137_D0.5821.00
7_V34_L0.5791.00
145_R204_E0.5771.00
158_R162_V0.5741.00
52_D101_K0.5731.00
68_R73_V0.5721.00
72_A122_T0.5711.00
133_D137_D0.5671.00
134_V143_I0.5661.00
97_D114_V0.5631.00
9_D79_S0.5591.00
90_A98_Y0.5551.00
38_L70_W0.5541.00
136_V161_A0.5541.00
125_P128_L0.5511.00
145_R205_Q0.5511.00
68_R74_P0.5501.00
74_P119_H0.5491.00
103_F107_E0.5491.00
72_A121_A0.5471.00
13_I16_F0.5451.00
4_V112_L0.5441.00
51_L67_L0.5441.00
145_R148_E0.5431.00
33_T55_L0.5411.00
80_A102_P0.5401.00
166_N179_Q0.5401.00
6_I14_R0.5391.00
165_N171_L0.5371.00
129_V138_L0.5351.00
10_E102_P0.5341.00
138_L165_N0.5321.00
187_E191_Y0.5291.00
67_L73_V0.5291.00
129_V132_S0.5281.00
41_A70_W0.5271.00
20_A24_D0.5261.00
129_V164_L0.5251.00
64_I68_R0.5251.00
92_D106_G0.5231.00
26_M116_L0.5211.00
88_I91_L0.5201.00
163_L171_L0.5171.00
7_V51_L0.5161.00
160_L163_L0.5161.00
155_I195_Y0.5151.00
136_V143_I0.5111.00
137_D142_V0.5101.00
188_H191_Y0.5001.00
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  
4kfcA 2 0.9956 100 0.164 Contact Map
4b09A 2 0.9289 100 0.177 Contact Map
2gwrA 1 0.9822 100 0.181 Contact Map
2oqrA 2 0.9956 100 0.184 Contact Map
3r0jA 2 0.9689 100 0.191 Contact Map
1ys7A 2 0.9911 100 0.199 Contact Map
1kgsA 1 0.9644 100 0.222 Contact Map
1p2fA 1 0.9556 100 0.222 Contact Map
3q9sA 1 0.9333 100 0.242 Contact Map
2hqrA 2 0.9511 100 0.25 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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