GREMLIN Database
LRPB - HTH-type transcriptional regulator LrpB
UniProt: P96653 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 149 (137)
Sequences: 13521 (8685)
Seq/√Len: 742.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
44_E52_Y2.9441.00
13_L28_K2.9051.00
72_F127_N2.6181.00
100_D129_Q2.5321.00
93_E106_K2.4551.00
110_H114_V2.2731.00
22_W40_I2.2691.00
59_L113_E2.1221.00
13_L20_I2.0631.00
50_K57_D2.0281.00
7_D39_R2.0101.00
42_K46_N1.9991.00
74_N126_G1.8541.00
66_T106_K1.8231.00
6_I31_M1.7921.00
68_F95_H1.7811.00
92_S108_T1.7441.00
50_K55_V1.7371.00
88_R118_L1.6911.00
41_K45_D1.6691.00
70_F131_Y1.6571.00
31_M35_A1.6321.00
23_K27_E1.6211.00
13_L16_K1.6181.00
20_I28_K1.5511.00
111_S114_V1.5351.00
23_K33_G1.5231.00
24_E27_E1.4881.00
114_V117_H1.4831.00
32_T35_A1.4691.00
31_M36_V1.4551.00
117_H121_D1.4481.00
84_F87_T1.4441.00
136_E139_K1.4011.00
82_L86_A1.3971.00
81_L85_I1.3891.00
22_W37_G1.3791.00
10_I25_I1.3711.00
29_I36_V1.3681.00
71_F105_L1.3661.00
19_R52_Y1.3511.00
69_V107_V1.3361.00
72_F100_D1.3351.00
90_E114_V1.3311.00
77_M80_D1.3241.00
20_I25_I1.3191.00
70_F101_A1.3011.00
65_F112_Q1.2941.00
116_N135_K1.2741.00
14_L40_I1.2641.00
5_S9_Q1.2631.00
24_E28_K1.2551.00
79_D83_K1.2451.00
63_F110_H1.2231.00
73_M81_L1.2171.00
72_F126_G1.2001.00
41_K44_E1.1741.00
16_K28_K1.1611.00
6_I9_Q1.1561.00
82_L135_K1.1291.00
70_F129_Q1.1251.00
4_D39_R1.1241.00
17_N28_K1.1121.00
21_Q24_E1.1051.00
51_A55_V1.1041.00
66_T108_T1.1031.00
13_L25_I1.0821.00
6_I29_I1.0761.00
22_W26_G1.0701.00
9_Q13_L1.0531.00
9_Q12_Q1.0311.00
91_I107_V1.0181.00
26_G36_V1.0041.00
109_V114_V1.0031.00
82_L103_Y0.9981.00
12_Q16_K0.9941.00
20_I24_E0.9881.00
83_K86_A0.9821.00
37_G41_K0.9811.00
80_D84_F0.9741.00
84_F122_L0.9671.00
97_V104_L0.9661.00
109_V118_L0.9581.00
68_F104_L0.9531.00
94_A105_L0.9511.00
9_Q29_I0.9461.00
57_D60_K0.9361.00
95_H106_K0.9341.00
116_N120_N0.9321.00
33_G37_G0.9321.00
18_A52_Y0.9301.00
68_F106_K0.9141.00
19_R44_E0.9071.00
109_V115_L0.9051.00
3_I8_F0.8971.00
88_R121_D0.8931.00
107_V118_L0.8911.00
22_W33_G0.8851.00
64_S111_S0.8741.00
74_N77_M0.8661.00
68_F133_S0.8551.00
58_E108_T0.8531.00
74_N124_K0.8481.00
43_M48_I0.8431.00
26_G31_M0.8421.00
23_K37_G0.8361.00
95_H136_E0.8291.00
96_R120_N0.8281.00
7_D42_K0.8271.00
83_K87_T0.8241.00
85_I94_A0.8191.00
95_H133_S0.8181.00
18_A24_E0.8141.00
8_F12_Q0.8071.00
91_I94_A0.8071.00
84_F88_R0.7931.00
100_D127_N0.7831.00
98_S132_L0.7691.00
79_D82_L0.7671.00
71_F81_L0.7611.00
91_I105_L0.7601.00
72_F101_A0.7601.00
70_F104_L0.7591.00
101_A129_Q0.7551.00
18_A54_I0.7551.00
112_Q132_L0.7531.00
34_Q38_N0.7501.00
25_I40_I0.7491.00
25_I36_V0.7451.00
4_D7_D0.7351.00
10_I39_R0.7191.00
10_I36_V0.7101.00
66_T133_S0.7011.00
71_F125_Y0.7001.00
17_N20_I0.6921.00
10_I20_I0.6901.00
78_H103_Y0.6901.00
80_D83_K0.6891.00
119_L130_L0.6891.00
63_F90_E0.6831.00
90_E118_L0.6801.00
82_L137_V0.6801.00
5_S8_F0.6791.00
48_I60_K0.6761.00
113_E116_N0.6721.00
70_F100_D0.6711.00
13_L17_N0.6671.00
10_I40_I0.6631.00
81_L103_Y0.6601.00
69_V128_Y0.6591.00
69_V105_L0.6591.00
114_V118_L0.6551.00
11_L43_M0.6551.00
71_F128_Y0.6531.00
66_T136_E0.6491.00
38_N42_K0.6441.00
63_F108_T0.6401.00
10_I13_L0.6371.00
96_R103_Y0.6341.00
26_G33_G0.6331.00
67_A132_L0.6291.00
88_R122_L0.6271.00
38_N41_K0.6251.00
118_L121_D0.6231.00
3_I48_I0.6131.00
67_A115_L0.6121.00
80_D124_K0.6101.00
7_D43_M0.6081.00
39_R43_M0.6021.00
85_I105_L0.6001.00
90_E110_H0.5961.00
84_F124_K0.5941.00
119_L128_Y0.5921.00
18_A51_A0.5891.00
34_Q37_G0.5881.00
22_W36_V0.5731.00
72_F129_Q0.5661.00
97_V101_A0.5641.00
47_G50_K0.5631.00
49_I52_Y0.5611.00
113_E117_H0.5601.00
56_V61_M0.5581.00
93_E139_K0.5511.00
10_I43_M0.5491.00
57_D61_M0.5441.00
42_K45_D0.5341.00
98_S134_I0.5341.00
77_M123_L0.5341.00
119_L134_I0.5311.00
66_T95_H0.5291.00
79_D120_N0.5281.00
94_A137_V0.5271.00
96_R134_I0.5251.00
55_V58_E0.5231.00
6_I35_A0.5221.00
117_H120_N0.5211.00
67_A109_V0.5191.00
128_Y134_I0.5161.00
15_N53_S0.5131.00
97_V131_Y0.5121.00
70_F97_V0.5111.00
17_N24_E0.5101.00
23_K26_G0.5081.00
112_Q134_I0.5081.00
12_Q15_N0.5011.00
7_D46_N0.5001.00
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  
4ch7A 1 0.9463 100 0.176 Contact Map
4un1A 1 0.9329 100 0.215 Contact Map
4un1B 1 0.9799 100 0.221 Contact Map
2e1cA 1 0.9664 100 0.223 Contact Map
4pcqA 2 0.953 100 0.24 Contact Map
2p5vA 5 1 100 0.241 Contact Map
2ia0A 2 0.9664 100 0.261 Contact Map
3i4pA 5 0.9799 100 0.261 Contact Map
2cg4A 6 0.9664 100 0.27 Contact Map
2pn6A 5 0.9664 100 0.275 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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