GREMLIN Database
YCGE - Uncharacterized HTH-type transcriptional regulator YcgE
UniProt: O31472 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 154 (134)
Sequences: 23682 (17624)
Seq/√Len: 1522.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
87_E99_V3.1571.00
54_P99_V3.1311.00
130_E140_K2.8811.00
56_T95_R2.7251.00
89_D97_V2.6051.00
85_A99_V2.5651.00
127_T130_E2.3221.00
133_L137_F2.1691.00
133_L136_S2.1421.00
88_K96_V2.0871.00
50_N108_I2.0531.00
42_D81_A2.0091.00
54_P97_V1.9301.00
56_T59_E1.9211.00
130_E133_L1.8811.00
126_Y137_F1.8281.00
125_E144_I1.8161.00
89_D95_R1.8051.00
50_N100_P1.7421.00
103_A107_H1.6341.00
42_D77_R1.6231.00
79_E86_R1.5951.00
134_I137_F1.5741.00
54_P87_E1.5521.00
82_G103_A1.5411.00
57_A75_V1.5371.00
130_E136_S1.5181.00
17_L139_G1.5131.00
45_S74_L1.5101.00
52_A63_K1.5061.00
39_F42_D1.5061.00
75_V98_I1.4871.00
107_H110_D1.4551.00
76_D80_K1.3971.00
48_I63_K1.3951.00
103_A106_K1.3571.00
137_F140_K1.3391.00
50_N105_K1.3311.00
17_L142_A1.3221.00
17_L135_F1.2901.00
67_S70_S1.2441.00
59_E62_K1.2141.00
57_A96_V1.2091.00
36_L114_P1.2041.00
58_G68_T1.1991.00
32_A114_P1.1901.00
76_D93_R1.1841.00
45_S71_V1.1771.00
136_S140_K1.1761.00
58_G62_K1.1631.00
36_L110_D1.1591.00
66_L70_S1.1551.00
86_R96_V1.1341.00
21_L142_A1.1331.00
135_F139_G1.0921.00
69_G72_T1.0911.00
57_A68_T1.0811.00
57_A71_V1.0761.00
131_L135_F1.0741.00
20_K142_A1.0691.00
130_E137_F1.0681.00
30_Q34_Q1.0661.00
106_K110_D1.0641.00
35_A114_P1.0631.00
57_A98_I1.0561.00
55_M59_E1.0221.00
129_E133_L1.0091.00
83_Y107_H0.9941.00
52_A55_M0.9841.00
85_A101_L0.9721.00
76_D79_E0.9651.00
72_T76_D0.9621.00
114_P117_E0.9481.00
87_E97_V0.9461.00
41_T74_L0.9341.00
59_E63_K0.9301.00
81_A107_H0.9211.00
100_P104_S0.9211.00
81_A103_A0.9161.00
66_L71_V0.9081.00
83_Y103_A0.9081.00
55_M63_K0.9041.00
70_S73_A0.9011.00
105_K109_K0.8901.00
102_T105_K0.8791.00
21_L138_V0.8761.00
67_S73_A0.8711.00
88_K93_R0.8681.00
19_R22_G0.8661.00
50_N112_F0.8631.00
43_L111_L0.8591.00
32_A117_E0.8571.00
22_G26_V0.8511.00
32_A121_D0.8491.00
110_D114_P0.8441.00
14_A135_F0.8361.00
49_L84_V0.8321.00
102_T106_K0.8321.00
32_A118_S0.8281.00
128_E132_E0.8271.00
44_K64_T0.8271.00
29_H32_A0.8261.00
36_L111_L0.8201.00
73_A77_R0.8191.00
50_N109_K0.8181.00
53_G105_K0.8091.00
119_T122_L0.8081.00
113_R117_E0.8011.00
133_L140_K0.7951.00
48_I52_A0.7951.00
37_G81_A0.7911.00
77_R80_K0.7911.00
75_V84_V0.7901.00
79_E85_A0.7891.00
115_L119_T0.7841.00
92_D95_R0.7831.00
126_Y141_A0.7801.00
19_R23_T0.7791.00
30_Q40_P0.7781.00
24_R142_A0.7741.00
28_F118_S0.7691.00
118_S121_D0.7681.00
90_P97_V0.7601.00
73_A76_D0.7581.00
45_S60_L0.7551.00
46_A108_I0.7531.00
48_I64_T0.7521.00
89_D92_D0.7441.00
117_E120_M0.7421.00
41_T70_S0.7421.00
121_D124_R0.7361.00
61_G71_V0.7341.00
52_A59_E0.7311.00
123_C131_L0.7281.00
61_G68_T0.7281.00
75_V79_E0.7241.00
18_F22_G0.7201.00
139_G143_D0.7191.00
79_E84_V0.7191.00
45_S64_T0.7131.00
43_L115_L0.7111.00
32_A35_A0.7091.00
48_I55_M0.7051.00
132_E135_F0.7041.00
49_L100_P0.7041.00
113_R116_S0.7021.00
57_A72_T0.6981.00
129_E132_E0.6951.00
100_P105_K0.6941.00
23_T27_L0.6941.00
117_E121_D0.6891.00
77_R81_A0.6881.00
127_T131_L0.6811.00
76_D86_R0.6801.00
116_S120_M0.6681.00
53_G99_V0.6681.00
17_L20_K0.6621.00
47_D51_E0.6571.00
132_E136_S0.6461.00
49_L55_M0.6411.00
110_D113_R0.6401.00
42_D74_L0.6401.00
21_L141_A0.6341.00
71_V75_V0.6311.00
137_F141_A0.6301.00
126_Y131_L0.6191.00
140_K144_I0.6171.00
106_K109_K0.6171.00
101_L104_S0.5971.00
13_T135_F0.5971.00
48_I60_L0.5901.00
25_T28_F0.5871.00
44_K48_I0.5861.00
58_G61_G0.5751.00
26_V29_H0.5711.00
86_R98_I0.5661.00
43_L108_I0.5651.00
82_G85_A0.5521.00
115_L118_S0.5471.00
31_A34_Q0.5471.00
28_F121_D0.5461.00
41_T66_L0.5451.00
137_F144_I0.5441.00
47_D112_F0.5401.00
123_C127_T0.5391.00
14_A17_L0.5371.00
68_T72_T0.5361.00
28_F31_A0.5351.00
58_G95_R0.5321.00
125_E140_K0.5271.00
18_F138_V0.5201.00
46_A50_N0.5181.00
127_T140_K0.5141.00
108_I112_F0.5091.00
26_V30_Q0.5091.00
56_T89_D0.5071.00
38_L111_L0.5061.00
18_F21_L0.5051.00
78_L83_Y0.5031.00
112_F116_S0.5011.00
29_H115_L0.5001.00
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  
3cdhA 4 0.8831 99.9 0.261 Contact Map
3cjnA 2 0.9221 99.9 0.271 Contact Map
3deuA 2 0.8506 99.9 0.274 Contact Map
3e6mA 2 0.9481 99.9 0.275 Contact Map
4mnuA 2 0.9416 99.9 0.275 Contact Map
1z91A 2 0.8896 99.9 0.275 Contact Map
1lj9A 2 0.9286 99.9 0.276 Contact Map
3bj6A 2 0.9675 99.9 0.279 Contact Map
4rguA 4 0.9351 99.9 0.279 Contact Map
3zplA 2 1 99.9 0.283 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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