GREMLIN Database
YTFH - Uncharacterized HTH-type transcriptional regulator YtfH
UniProt: P0ACN2 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12508
Length: 126 (101)
Sequences: 9632 (5705)
Seq/√Len: 567.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
52_R60_E2.8741.00
77_N91_S2.8311.00
98_Q112_L2.7061.00
61_K65_Q2.6781.00
83_V87_H2.5951.00
42_R100_S2.5771.00
79_I91_S2.5551.00
41_L76_L2.3141.00
40_A54_K2.1071.00
77_N93_T2.0991.00
81_Y89_E1.9131.00
95_L113_N1.8491.00
81_Y87_H1.7291.00
41_L51_L1.7201.00
105_A108_D1.7121.00
37_I66_S1.6661.00
101_E105_A1.6641.00
102_K105_A1.6521.00
92_L96_G1.6251.00
46_H54_K1.5531.00
68_Q71_E1.5331.00
45_T91_S1.5131.00
25_V106_L1.4441.00
45_T89_E1.4301.00
94_P97_E1.4111.00
34_G69_A1.4081.00
62_M65_Q1.3971.00
78_R88_V1.3851.00
97_E100_S1.3771.00
75_F96_G1.3511.00
95_L98_Q1.2961.00
31_S69_A1.2741.00
34_G66_S1.2081.00
98_Q109_W1.2041.00
28_H73_D1.1931.00
25_V110_I1.1901.00
107_A111_E1.1901.00
60_E64_A1.1871.00
95_L116_E1.1501.00
24_E114_L1.1421.00
79_I89_E1.1341.00
81_Y85_P1.1281.00
41_L46_H1.1201.00
38_L92_L1.1201.00
71_E76_L1.1161.00
46_H50_D1.1121.00
80_A85_P1.0861.00
49_S53_R1.0821.00
80_A88_V1.0641.00
31_S66_S1.0621.00
28_H75_F1.0571.00
64_A68_Q1.0531.00
98_Q113_N1.0391.00
82_P85_P1.0311.00
35_V103_V1.0211.00
31_S34_G1.0141.00
75_F99_V1.0141.00
47_R89_E1.0131.00
91_S97_E1.0131.00
34_G70_L1.0081.00
37_I55_I1.0071.00
48_F64_A1.0051.00
80_A86_P1.0041.00
81_Y86_P0.9861.00
81_Y84_V0.9401.00
100_S104_A0.9321.00
62_M66_S0.9311.00
50_D53_R0.9171.00
99_V109_W0.8961.00
101_E108_D0.8911.00
58_V63_L0.8651.00
48_F60_E0.8541.00
43_E46_H0.8541.00
108_D112_L0.8461.00
23_R27_K0.8431.00
59_S62_M0.8431.00
74_G95_L0.8371.00
42_R92_L0.8321.00
49_S52_R0.8291.00
42_R104_A0.8211.00
80_A84_V0.8181.00
21_P111_E0.8091.00
39_V107_A0.8051.00
34_G73_D0.8001.00
40_A51_L0.7711.00
46_H51_L0.7671.00
102_K106_L0.7481.00
69_A73_D0.7451.00
24_E113_N0.7421.00
18_E23_R0.7391.00
37_I58_V0.7201.00
39_V42_R0.7141.00
55_I58_V0.6981.00
104_A108_D0.6951.00
65_Q69_A0.6921.00
104_A107_A0.6881.00
83_V89_E0.6711.00
80_A83_V0.6671.00
40_A43_E0.6601.00
26_L106_L0.6601.00
113_N116_E0.6571.00
111_E114_L0.6541.00
58_V88_V0.6541.00
33_W58_V0.6531.00
84_V88_V0.6341.00
18_E27_K0.6261.00
71_E80_A0.6261.00
70_L75_F0.6221.00
26_L35_V0.6161.00
110_I114_L0.6081.00
38_L99_V0.6061.00
83_V86_P0.5981.00
99_V102_K0.5961.00
47_R50_D0.5911.00
95_L114_L0.5901.00
47_R81_Y0.5821.00
108_D111_E0.5791.00
41_L45_T0.5751.00
71_E78_R0.5741.00
43_E54_K0.5731.00
41_L71_E0.5731.00
45_T51_L0.5710.99
36_L55_I0.5690.99
112_L115_P0.5670.99
16_F22_S0.5620.99
85_P88_V0.5620.99
22_S114_L0.5610.99
24_E27_K0.5570.99
109_W113_N0.5550.99
16_F19_Q0.5500.99
102_K110_I0.5480.99
49_S60_E0.5470.99
60_E66_S0.5470.99
50_D54_K0.5460.99
52_R63_L0.5440.99
101_E104_A0.5430.99
36_L40_A0.5410.99
41_L92_L0.5400.99
29_V106_L0.5390.99
98_Q101_E0.5370.99
44_G97_E0.5360.99
38_L75_F0.5350.99
48_F52_R0.5300.99
40_A46_H0.5250.99
45_T79_I0.5150.99
83_V88_V0.5150.99
92_L97_E0.5140.99
23_R36_L0.5080.99
29_V99_V0.5060.99
101_E112_L0.5040.99
64_A78_R0.5040.99
17_A56_G0.5000.99
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  
4gcvA 3 0.8413 99.9 0.421 Contact Map
1yyvA 2 0.8889 99.8 0.481 Contact Map
4a5nA 2 0.8333 99.7 0.502 Contact Map
2fswA 2 0.8175 99.7 0.52 Contact Map
1z7uA 2 0.881 99.7 0.526 Contact Map
2hztA 2 0.754 99.7 0.532 Contact Map
2f2eA 4 0.8889 99.7 0.543 Contact Map
4hw0A 2 0.754 99.6 0.565 Contact Map
3df8A 2 0.8333 99.6 0.572 Contact Map
4hqeA 2 0.8413 99.4 0.613 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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