GREMLIN Database
YOBS - Uncharacterized HTH-type transcriptional regulator YobS
UniProt: O34892 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 191 (175)
Sequences: 34010 (27312)
Seq/√Len: 2064.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
23_E32_A4.2391.00
31_A41_P4.0151.00
18_E36_K3.6841.00
49_N53_A3.0181.00
20_A28_V2.5491.00
15_A36_K2.3411.00
50_G53_A2.2981.00
19_I36_K2.1821.00
8_T11_M2.1611.00
22_Q36_K2.1401.00
15_A18_E2.1171.00
10_K61_R1.9931.00
19_I32_A1.9911.00
34_S44_L1.9861.00
19_I28_V1.9701.00
40_R43_S1.9201.00
19_I23_E1.8941.00
10_K14_D1.8431.00
11_M15_A1.8131.00
17_A61_R1.8071.00
48_I57_E1.8051.00
78_K81_S1.8021.00
9_Q57_E1.7931.00
30_L41_P1.7721.00
18_E22_Q1.7461.00
84_L173_S1.7441.00
13_V57_E1.7421.00
31_A35_K1.7011.00
125_T129_I1.6651.00
32_A36_K1.6511.00
32_A35_K1.6371.00
30_L45_Y1.5541.00
88_H169_L1.5481.00
7_L11_M1.5101.00
16_A20_A1.5061.00
24_G27_G1.5001.00
88_H173_S1.4831.00
17_A58_L1.4701.00
123_L127_L1.4591.00
57_E60_V1.4401.00
61_R65_K1.4321.00
23_E27_G1.4171.00
17_A62_G1.3961.00
14_D61_R1.3631.00
28_V33_L1.3501.00
145_G149_L1.3481.00
39_V43_S1.3361.00
16_A54_I1.3341.00
16_A58_L1.3161.00
30_L44_L1.3061.00
84_L88_H1.3051.00
138_T142_A1.2891.00
20_A25_V1.2821.00
121_V125_T1.2771.00
24_G28_V1.2681.00
69_Q89_A1.2481.00
9_Q47_H1.2421.00
43_S46_N1.2371.00
45_Y50_G1.2221.00
13_V48_I1.2191.00
29_S32_A1.2141.00
21_D99_G1.2091.00
40_R46_N1.2091.00
80_D84_L1.2021.00
15_A37_M1.1991.00
15_A19_I1.1841.00
84_L177_R1.1821.00
167_D170_E1.1741.00
53_A57_E1.1701.00
43_S47_H1.1681.00
82_A130_E1.1651.00
135_S138_T1.1531.00
134_A137_K1.1451.00
128_L131_N1.1431.00
56_A60_V1.1361.00
41_P45_Y1.1331.00
33_L54_I1.1241.00
169_L173_S1.1181.00
60_V64_T1.1161.00
126_K130_E1.1031.00
8_T47_H1.1021.00
7_L10_K1.1021.00
81_S85_S1.0821.00
62_G65_K1.0771.00
121_V140_I1.0571.00
13_V61_R1.0531.00
23_E36_K1.0331.00
34_S41_P1.0331.00
138_T141_H1.0281.00
12_I44_L1.0181.00
42_P46_N1.0151.00
117_S121_V1.0121.00
69_Q72_D1.0121.00
17_A21_D1.0111.00
102_E106_L1.0061.00
172_L175_S1.0021.00
85_S88_H0.9951.00
13_V58_L0.9741.00
93_F97_N0.9721.00
173_S177_R0.9661.00
170_E174_F0.9631.00
41_P46_N0.9611.00
5_I46_N0.9591.00
174_F178_T0.9591.00
89_A92_D0.9531.00
53_A56_A0.9431.00
174_F177_R0.9421.00
141_H174_F0.9351.00
52_Q56_A0.9341.00
57_E61_R0.9261.00
149_L175_S0.9261.00
148_S152_G0.9251.00
25_V55_R0.9191.00
35_K41_P0.9101.00
123_L126_K0.9081.00
14_D18_E0.8971.00
125_T128_L0.8911.00
125_T139_A0.8901.00
18_E99_G0.8851.00
145_G148_S0.8841.00
97_N100_Y0.8831.00
11_M14_D0.8771.00
85_S89_A0.8671.00
8_T39_V0.8641.00
81_S84_L0.8531.00
6_G10_K0.8531.00
151_H155_V0.8471.00
116_V119_Q0.8301.00
175_S179_F0.8271.00
124_V131_N0.8181.00
122_C125_T0.8171.00
127_L131_N0.8111.00
126_K129_I0.8111.00
128_L136_E0.8091.00
157_I160_E0.7981.00
115_I119_Q0.7801.00
92_D96_E0.7801.00
71_A75_T0.7791.00
61_R64_T0.7761.00
73_S89_A0.7731.00
172_L176_I0.7721.00
68_D72_D0.7721.00
73_S85_S0.7701.00
92_D169_L0.7691.00
60_V116_V0.7671.00
141_H170_E0.7641.00
122_C126_K0.7641.00
5_I8_T0.7591.00
11_M37_M0.7581.00
13_V17_A0.7581.00
88_H172_L0.7541.00
67_F71_A0.7531.00
64_T68_D0.7501.00
109_H112_R0.7451.00
168_I171_S0.7441.00
127_L130_E0.7421.00
51_L55_R0.7401.00
169_L172_L0.7251.00
30_L51_L0.7211.00
141_H145_G0.7201.00
44_L54_I0.7191.00
8_T43_S0.7161.00
118_D122_C0.7151.00
23_E28_V0.7131.00
19_I22_Q0.7061.00
12_I37_M0.7051.00
110_D114_E0.6991.00
41_P44_L0.6961.00
168_I172_L0.6941.00
120_I127_L0.6921.00
22_Q32_A0.6921.00
88_H92_D0.6911.00
128_L133_Y0.6901.00
112_R116_V0.6901.00
166_E169_L0.6801.00
136_E139_A0.6801.00
21_D97_N0.6771.00
112_R115_I0.6761.00
141_H144_R0.6761.00
73_S77_R0.6741.00
102_E105_L0.6741.00
68_D71_A0.6731.00
114_E118_D0.6721.00
110_D113_T0.6711.00
135_S139_A0.6691.00
111_K114_E0.6661.00
137_K142_A0.6661.00
67_F119_Q0.6581.00
78_K82_A0.6551.00
131_N134_A0.6521.00
82_A126_K0.6511.00
140_I144_R0.6501.00
77_R85_S0.6451.00
64_T116_V0.6391.00
25_V51_L0.6291.00
39_V42_P0.6251.00
125_T140_I0.6241.00
171_S175_S0.6191.00
71_A123_L0.6191.00
87_A146_L0.6181.00
76_E85_S0.6181.00
157_I161_A0.6151.00
46_N49_N0.6121.00
120_I124_V0.6101.00
101_Y104_A0.6081.00
78_K132_G0.6081.00
62_G100_Y0.6071.00
39_V47_H0.6071.00
60_V112_R0.6031.00
127_L132_G0.6011.00
90_Y94_A0.5991.00
30_L34_S0.5981.00
65_K68_D0.5971.00
69_Q93_F0.5971.00
91_V172_L0.5931.00
8_T40_R0.5891.00
40_R44_L0.5841.00
103_A106_L0.5841.00
74_V126_K0.5831.00
167_D171_S0.5811.00
165_E168_I0.5801.00
156_L159_K0.5801.00
99_G102_E0.5761.00
115_I118_D0.5751.00
73_S76_E0.5731.00
165_E169_L0.5721.00
149_L152_G0.5721.00
160_E163_E0.5701.00
172_L178_T0.5701.00
153_F157_I0.5681.00
66_L93_F0.5671.00
139_A143_T0.5641.00
90_Y151_H0.5591.00
94_A101_Y0.5541.00
33_L37_M0.5521.00
170_E173_S0.5511.00
121_V128_L0.5481.00
151_H156_L0.5471.00
87_A150_L0.5441.00
152_G155_V0.5421.00
37_M40_R0.5381.00
91_V157_I0.5341.00
133_Y136_E0.5331.00
146_L179_F0.5311.00
56_A112_R0.5291.00
12_I47_H0.5291.00
17_A65_K0.5281.00
128_L132_G0.5271.00
147_R151_H0.5251.00
116_V120_I0.5231.00
74_V123_L0.5181.00
45_Y53_A0.5171.00
84_L87_A0.5141.00
129_I139_A0.5131.00
91_V95_I0.5101.00
127_L133_Y0.5101.00
148_S156_L0.5091.00
71_A119_Q0.5051.00
171_S174_F0.5051.00
25_V52_Q0.5021.00
82_A127_L0.5001.00
34_S39_V0.5001.00
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  
1zk8A 2 0.9319 100 0.235 Contact Map
4jykA 2 0.9686 100 0.273 Contact Map
2iaiA 2 0.9372 100 0.274 Contact Map
2f07A 2 0.9686 100 0.275 Contact Map
3on2A 1 0.9476 100 0.28 Contact Map
3bjbA 4 0.9476 100 0.283 Contact Map
4udsA 2 0.9162 100 0.289 Contact Map
3npiA 2 0.9791 100 0.292 Contact Map
3nrgA 2 0.9738 100 0.292 Contact Map
2dg7A 2 0.9529 100 0.293 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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