GREMLIN Database
LRPA - HTH-type transcriptional regulator LrpA
UniProt: P96652 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 136 (132)
Sequences: 13266 (8615)
Seq/√Len: 749.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
43_I51_C2.9211.00
12_E27_K2.8701.00
100_D129_K2.6241.00
93_N106_E2.5641.00
71_Y127_N2.3691.00
110_P114_V2.3001.00
21_M39_V2.2951.00
58_V113_E2.1461.00
6_D38_R2.0301.00
49_K56_N1.9881.00
12_E19_L1.9761.00
41_K45_N1.9531.00
73_E126_A1.8691.00
67_F95_Y1.7871.00
65_H106_E1.7661.00
19_L27_K1.7591.00
49_K54_E1.7491.00
87_Q118_F1.7391.00
40_V44_D1.7091.00
30_L34_A1.6701.00
12_E15_K1.6691.00
5_I30_L1.6591.00
92_I108_K1.6571.00
117_Q121_D1.6281.00
22_K26_E1.5691.00
23_K26_E1.5671.00
114_V117_Q1.5611.00
9_I24_L1.5251.00
69_N131_S1.4991.00
111_S114_V1.4881.00
30_L35_T1.4611.00
83_F86_T1.4571.00
80_Y84_I1.4361.00
18_R51_C1.4101.00
22_K32_A1.4081.00
31_T34_A1.4051.00
21_M36_A1.3651.00
70_I105_L1.3631.00
28_V35_T1.3311.00
81_L85_E1.3271.00
78_Q82_A1.3251.00
89_N114_V1.2931.00
69_N101_G1.2761.00
71_Y100_D1.2751.00
15_K27_K1.2691.00
64_I112_N1.2681.00
13_L39_V1.2641.00
68_L107_C1.2571.00
72_I80_Y1.2511.00
69_N129_K1.2411.00
23_K27_K1.2271.00
19_L24_L1.2261.00
4_E8_K1.2211.00
62_F110_P1.2091.00
76_H79_P1.1881.00
5_I8_K1.1861.00
20_T23_K1.1521.00
16_N27_K1.1351.00
40_V43_I1.1291.00
3_D38_R1.1261.00
5_I28_V1.0911.00
19_L23_K1.0901.00
71_Y126_A1.0751.00
12_E24_L1.0731.00
17_S51_C1.0721.00
87_Q121_D1.0641.00
65_H108_K1.0591.00
63_S111_S1.0471.00
56_N59_K1.0431.00
21_M25_G1.0281.00
50_G54_E1.0281.00
8_K11_D1.0261.00
11_D15_K1.0261.00
94_N105_L0.9941.00
25_G35_T0.9911.00
67_F104_L0.9851.00
109_F118_F0.9821.00
8_K12_E0.9801.00
79_P83_F0.9711.00
97_V104_L0.9711.00
32_A36_A0.9691.00
91_V107_C0.9621.00
109_F114_V0.9591.00
67_F106_E0.9521.00
18_R43_I0.9471.00
116_D120_N0.9401.00
21_M32_A0.9341.00
16_N19_L0.9311.00
95_Y106_E0.9161.00
81_L103_Y0.9101.00
82_A85_E0.9071.00
109_F115_L0.8921.00
67_F133_V0.8851.00
96_K120_N0.8821.00
107_C118_F0.8801.00
2_I7_K0.8791.00
82_A86_T0.8781.00
42_L47_I0.8761.00
25_G30_L0.8611.00
36_A40_V0.8571.00
24_L39_V0.8561.00
17_S53_I0.8551.00
57_Q108_K0.8421.00
8_K28_V0.8351.00
22_K36_A0.8341.00
84_I94_N0.8221.00
7_K11_D0.8031.00
91_V94_N0.8001.00
70_I125_H0.7891.00
91_V105_L0.7861.00
100_D127_N0.7861.00
98_S132_I0.7671.00
73_E124_K0.7611.00
6_D41_K0.7611.00
70_I80_Y0.7521.00
119_L134_I0.7521.00
79_P82_A0.7461.00
73_E76_H0.7421.00
95_Y133_V0.7391.00
33_P37_S0.7371.00
80_Y103_Y0.7331.00
83_F87_Q0.7281.00
69_N104_L0.7231.00
78_Q81_L0.7171.00
112_N132_I0.7111.00
47_I59_K0.7111.00
24_L35_T0.7091.00
65_H133_V0.7061.00
96_K103_Y0.6951.00
71_Y101_G0.6921.00
62_F89_N0.6891.00
101_G129_K0.6761.00
68_L105_L0.6671.00
12_E16_N0.6651.00
62_F108_K0.6641.00
4_E7_K0.6631.00
9_I35_T0.6631.00
69_N100_D0.6561.00
114_V118_F0.6531.00
89_N118_F0.6531.00
17_S50_G0.6491.00
119_L128_Y0.6431.00
9_I12_E0.6421.00
9_I38_R0.6401.00
9_I19_L0.6401.00
25_G32_A0.6391.00
37_S41_K0.6351.00
83_F124_K0.6351.00
113_E116_D0.6321.00
56_N60_L0.6301.00
66_A115_L0.6261.00
112_N134_I0.6241.00
6_D42_L0.6141.00
21_M35_T0.6141.00
33_P36_A0.6131.00
46_G49_K0.6131.00
70_I128_Y0.6121.00
78_Q120_N0.6021.00
37_S40_V0.6011.00
97_V133_V0.5941.00
38_R42_L0.5921.00
9_I42_L0.5911.00
84_I105_L0.5891.00
97_V101_G0.5841.00
3_D6_D0.5811.00
55_V60_L0.5801.00
128_Y134_I0.5771.00
20_T25_G0.5741.00
16_N23_K0.5711.00
87_Q91_V0.5671.00
15_K19_L0.5651.00
48_I51_C0.5651.00
14_S52_S0.5631.00
10_L42_L0.5611.00
84_I122_L0.5601.00
69_N97_V0.5561.00
65_H95_Y0.5541.00
71_Y129_K0.5531.00
68_L128_Y0.5521.00
113_E117_Q0.5501.00
77_H121_D0.5461.00
66_A109_F0.5461.00
2_I47_I0.5381.00
89_N110_P0.5361.00
87_Q122_L0.5361.00
96_K102_C0.5321.00
100_D131_S0.5321.00
96_K116_D0.5291.00
41_K44_D0.5241.00
9_I39_V0.5211.00
66_A130_V0.5151.00
66_A132_I0.5101.00
117_Q120_N0.5081.00
107_C115_L0.5061.00
75_I96_K0.5031.00
116_D119_L0.5031.00
97_V131_S0.5001.00
7_K14_S0.5001.00
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 0.9412 100 0.139 Contact Map
4un1B 1 0.9926 100 0.192 Contact Map
4un1A 1 0.9779 100 0.207 Contact Map
4pcqA 2 0.9926 100 0.208 Contact Map
2e1cA 1 0.9926 100 0.21 Contact Map
2ia0A 2 0.9632 100 0.215 Contact Map
2p5vA 5 0.9926 99.9 0.22 Contact Map
2cg4A 6 0.9926 99.9 0.233 Contact Map
3i4pA 5 0.9779 99.9 0.235 Contact Map
2pn6A 5 0.9853 99.9 0.253 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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