GREMLIN Database
YKVN - Uncharacterized HTH-type transcriptional regulator YkvN
UniProt: O31679 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 118 (99)
Sequences: 10052 (6050)
Seq/√Len: 608.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
63_S77_S2.7901.00
38_K46_Q2.7761.00
84_S98_Y2.6021.00
47_K51_Q2.5751.00
28_M86_K2.5411.00
65_K77_S2.4131.00
69_Q73_K2.3661.00
27_L62_V2.2641.00
26_F40_I2.1591.00
63_S79_T2.0701.00
67_Y75_E1.9311.00
81_L99_Y1.8561.00
67_Y73_K1.7221.00
23_V52_T1.7151.00
27_L37_L1.6571.00
87_P91_E1.6551.00
91_E94_Q1.6541.00
88_I91_E1.6501.00
78_S82_G1.6381.00
54_R57_E1.5861.00
31_P77_S1.5061.00
31_P75_E1.4931.00
32_K40_I1.4581.00
48_M51_Q1.4251.00
20_K55_E1.3911.00
83_E86_K1.3591.00
11_T92_L1.3251.00
84_S95_W1.2981.00
61_L82_G1.2981.00
20_K52_T1.2971.00
64_R74_V1.2941.00
80_E83_E1.2771.00
81_L84_S1.2581.00
17_G55_E1.2411.00
93_C97_G1.1701.00
57_E62_V1.1441.00
14_V59_S1.1421.00
46_Q50_I1.1391.00
67_Y71_P1.1351.00
81_L102_Q1.1321.00
10_V100_A1.1191.00
11_T96_G1.1091.00
27_L32_K1.1051.00
20_K56_L1.1041.00
65_K75_E1.0921.00
66_M74_V1.0771.00
17_G20_K1.0751.00
50_I54_R1.0661.00
35_S39_R1.0661.00
32_K36_E1.0601.00
84_S99_Y1.0541.00
17_G52_T1.0501.00
33_R75_E1.0431.00
61_L85_L1.0411.00
21_G89_L1.0221.00
77_S83_E1.0171.00
24_L78_S0.9891.00
68_N71_P0.9871.00
66_M72_P0.9841.00
34_T50_I0.9801.00
23_V41_I0.9791.00
67_Y72_P0.9721.00
14_V61_L0.9641.00
66_M71_P0.9601.00
67_Y70_V0.9391.00
36_E39_R0.9221.00
86_K90_Q0.9161.00
48_M52_T0.9131.00
85_L95_W0.8931.00
35_S38_K0.8851.00
45_T48_M0.8711.00
44_I49_L0.8651.00
28_M78_S0.8531.00
26_F37_L0.8521.00
87_P94_Q0.8511.00
29_N32_K0.8461.00
34_T46_Q0.8401.00
60_G81_L0.8321.00
9_E13_E0.8091.00
41_I44_I0.7961.00
25_Y93_C0.7891.00
94_Q98_Y0.7771.00
55_E59_S0.7681.00
90_Q94_Q0.7651.00
7_G97_G0.7471.00
10_V103_E0.7451.00
20_K59_S0.7431.00
32_K37_L0.7231.00
88_I92_L0.7211.00
96_G100_A0.7121.00
26_F29_N0.7091.00
66_M69_Q0.7071.00
28_M90_Q0.7041.00
66_M70_V0.6961.00
51_Q55_E0.6871.00
38_K49_L0.6831.00
25_Y28_M0.6821.00
19_W44_I0.6801.00
10_V99_Y0.6701.00
22_L41_I0.6611.00
23_V44_I0.6601.00
69_Q72_P0.6551.00
97_G100_A0.6531.00
22_L26_F0.6301.00
12_K21_G0.6271.00
99_Y102_Q0.6221.00
90_Q93_C0.6221.00
85_L88_I0.6151.00
33_R67_Y0.6141.00
94_Q97_G0.6121.00
70_V74_V0.6111.00
8_F100_A0.6091.00
6_C34_T0.6091.00
81_L103_E0.6051.00
33_R36_E0.6031.00
26_F32_K0.6011.00
35_S46_Q0.5961.00
30_G83_E0.5891.00
57_E64_R0.5831.00
12_K92_L0.5781.00
69_Q75_E0.5771.00
95_W99_Y0.5741.00
24_L85_L0.5731.00
87_P90_Q0.5721.00
27_L31_P0.5681.00
81_L100_A0.5681.00
8_F25_Y0.5671.00
9_E21_G0.5671.00
29_N40_I0.5621.00
11_T61_L0.5581.00
44_I74_V0.5551.00
80_E84_S0.5541.00
88_I96_G0.5470.99
84_S87_P0.5400.99
36_E40_I0.5400.99
99_Y103_E0.5360.99
10_V25_Y0.5250.99
12_K85_L0.5240.99
19_W49_L0.5240.99
34_T38_K0.5230.99
27_L57_E0.5210.99
57_E66_M0.5170.99
18_K51_Q0.5130.99
69_Q74_V0.5120.99
83_E87_P0.5080.99
56_L61_L0.5030.99
60_G102_Q0.5030.99
31_P65_K0.5000.99
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 0.9492 99.9 0.417 Contact Map
4a5nA 2 0.8898 99.7 0.5 Contact Map
1yyvA 2 0.8983 99.7 0.504 Contact Map
2hztA 2 0.8051 99.7 0.519 Contact Map
1z7uA 2 0.9068 99.7 0.521 Contact Map
2fswA 2 0.8475 99.7 0.525 Contact Map
2f2eA 4 0.9831 99.6 0.538 Contact Map
4hw0A 2 0.8305 99.6 0.559 Contact Map
3df8A 2 0.8305 99.5 0.573 Contact Map
4hqeA 2 0.8983 99.3 0.624 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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