GREMLIN Database
YFIV - Uncharacterized HTH-type transcriptional regulator YfiV
UniProt: O31564 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 160 (134)
Sequences: 24407 (18175)
Seq/√Len: 1570.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
63_T108_Q3.2031.00
96_S108_Q3.1981.00
139_E149_I2.9101.00
94_K108_Q2.6541.00
65_K104_S2.5381.00
98_S106_V2.4701.00
136_S139_E2.3831.00
142_A145_E2.1481.00
142_A146_G2.0471.00
97_H105_V1.9981.00
59_N117_F1.9571.00
51_Q90_S1.9291.00
135_L146_G1.8741.00
65_K68_D1.8711.00
98_S104_S1.8581.00
59_N109_L1.8351.00
139_E142_A1.7761.00
63_T106_V1.7511.00
134_L153_A1.6971.00
139_E145_E1.6391.00
91_G112_N1.6291.00
66_V84_L1.6291.00
26_L148_S1.6171.00
88_E95_R1.6041.00
112_N116_I1.5771.00
51_Q86_R1.5591.00
84_L107_V1.5551.00
143_V146_G1.5451.00
61_H72_K1.5231.00
54_V83_L1.4981.00
48_S51_Q1.4711.00
63_T96_S1.4501.00
112_N115_K1.4361.00
85_D89_K1.4041.00
59_N114_K1.3681.00
116_I119_G1.3671.00
146_G149_I1.3601.00
57_L72_K1.3181.00
26_L151_S1.3151.00
26_L144_Y1.2721.00
67_S77_L1.2621.00
68_D71_E1.2591.00
45_L123_K1.2421.00
145_E149_I1.2231.00
54_V80_T1.2201.00
76_S79_N1.2161.00
66_V105_V1.2021.00
41_E123_K1.2011.00
30_V151_S1.1901.00
67_S71_E1.1871.00
85_D102_R1.1521.00
115_K119_G1.1471.00
45_L119_G1.1331.00
75_A79_N1.1151.00
29_K151_S1.1061.00
95_R105_V1.0971.00
140_K144_Y1.0891.00
78_S81_T1.0841.00
39_V43_M1.0751.00
66_V80_T1.0641.00
66_V107_V1.0231.00
138_E142_A1.0131.00
50_P83_L1.0031.00
139_E146_G0.9891.00
66_V77_L0.9891.00
90_S116_I0.9801.00
90_S112_N0.9721.00
109_L113_A0.9701.00
111_E114_K0.9691.00
123_K126_L0.9691.00
64_L68_D0.9661.00
41_E130_R0.9601.00
94_K110_T0.9601.00
144_Y148_S0.9581.00
81_T85_D0.9581.00
111_E115_K0.9511.00
92_F116_I0.9501.00
30_V147_L0.9471.00
85_D88_E0.9411.00
76_S82_G0.9381.00
68_D72_K0.9371.00
23_I144_Y0.9291.00
96_S106_V0.9291.00
79_N82_G0.9141.00
97_H102_R0.9021.00
64_L72_K0.9021.00
45_L120_L0.8891.00
84_L93_V0.8851.00
135_L150_L0.8781.00
28_M31_L0.8781.00
75_A80_T0.8771.00
61_H64_L0.8771.00
114_K118_R0.8681.00
58_L93_V0.8671.00
41_E126_L0.8671.00
137_P141_Q0.8501.00
59_N118_R0.8451.00
31_L35_G0.8431.00
122_E126_L0.8421.00
62_G114_K0.8411.00
52_M120_L0.8381.00
33_S151_S0.8331.00
46_D90_S0.8301.00
88_E94_K0.8251.00
59_N121_Y0.8231.00
92_F112_N0.8211.00
39_V49_M0.8201.00
98_S101_D0.8201.00
124_G128_L0.8171.00
101_D104_S0.8151.00
53_K73_M0.8111.00
119_G123_K0.8111.00
128_L131_S0.7961.00
57_L73_M0.7931.00
126_L130_R0.7911.00
82_G85_D0.7911.00
55_L117_F0.7881.00
54_V73_M0.7881.00
28_M32_T0.7851.00
44_K123_K0.7791.00
141_Q145_E0.7671.00
82_G86_R0.7661.00
130_R133_E0.7621.00
99_E106_V0.7621.00
85_D95_R0.7581.00
142_A149_I0.7571.00
32_T36_L0.7541.00
126_L129_K0.7441.00
84_L88_E0.7441.00
50_P79_N0.7421.00
37_G127_K0.7401.00
66_V81_T0.7341.00
41_E127_K0.7331.00
136_S140_K0.7281.00
57_L69_I0.7261.00
148_S152_R0.7251.00
132_L140_K0.7241.00
70_A77_L0.7241.00
62_G108_Q0.7241.00
57_L61_H0.7201.00
58_L64_L0.7201.00
61_H68_D0.7171.00
138_E141_Q0.7161.00
122_E125_H0.7021.00
58_L109_L0.6991.00
141_Q144_Y0.6991.00
127_K130_R0.6981.00
115_K118_R0.6981.00
57_L64_L0.6971.00
88_E93_V0.6881.00
109_L114_K0.6871.00
30_V150_L0.6851.00
86_R89_K0.6831.00
125_H129_K0.6831.00
86_R90_S0.6811.00
52_M124_G0.6731.00
80_T84_L0.6711.00
54_V69_I0.6701.00
27_Y31_L0.6601.00
70_A80_T0.6561.00
37_G130_R0.6371.00
52_M117_F0.6151.00
38_D41_E0.6131.00
26_L29_K0.6121.00
41_E44_K0.6101.00
135_L140_K0.6051.00
149_I153_A0.5911.00
91_G94_K0.5861.00
35_G39_V0.5761.00
119_G122_E0.5761.00
40_S43_M0.5751.00
35_G38_D0.5721.00
77_L81_T0.5721.00
56_M60_N0.5701.00
146_G150_L0.5661.00
53_K57_L0.5631.00
110_T113_A0.5621.00
27_Y30_V0.5621.00
27_Y147_L0.5611.00
87_L92_F0.5571.00
118_R122_E0.5471.00
37_G40_S0.5431.00
121_Y125_H0.5411.00
51_Q83_L0.5401.00
146_G153_A0.5341.00
145_E148_S0.5331.00
65_K98_S0.5321.00
117_F121_Y0.5281.00
56_M121_Y0.5261.00
136_S149_I0.5261.00
50_P75_A0.5261.00
66_V104_S0.5231.00
134_L149_I0.5231.00
22_E144_Y0.5221.00
97_H101_D0.5171.00
67_S70_A0.5171.00
55_L59_N0.5121.00
38_D124_G0.5041.00
65_K106_V0.5031.00
29_K33_S0.5031.00
133_E153_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  
3cjnA 2 0.9125 99.9 0.277 Contact Map
3zplA 2 0.9437 99.9 0.284 Contact Map
2fbkA 2 0.8875 99.9 0.288 Contact Map
3u2rA 4 0.8313 99.9 0.289 Contact Map
3bj6A 2 0.9437 99.9 0.295 Contact Map
3e6mA 2 0.9437 99.9 0.297 Contact Map
3cdhA 4 0.85 99.9 0.297 Contact Map
3deuA 2 0.8187 99.9 0.298 Contact Map
3boqA 2 0.85 99.9 0.298 Contact Map
2ethA 4 0.8812 99.9 0.299 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.

Page generated in 0.0075 seconds.