GREMLIN Database
RUTR - HTH-type transcriptional regulator RutR
UniProt: P0ACU2 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12301
Length: 212 (176)
Sequences: 43158 (33051)
Seq/√Len: 2491.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
42_E52_K3.8721.00
34_F43_Q3.8431.00
29_D47_L3.4821.00
60_P64_A2.6751.00
31_F39_T2.4211.00
61_S64_A2.2571.00
30_T47_L2.1431.00
142_S160_Q2.0201.00
26_A47_L1.9941.00
45_A55_L1.9681.00
30_T43_Q1.9651.00
30_T34_F1.9461.00
30_T39_T1.9221.00
33_Q47_L1.9191.00
20_K68_A1.9171.00
21_K72_Q1.8811.00
26_A29_D1.8471.00
22_A26_A1.8441.00
89_A92_A1.8441.00
19_K22_A1.8021.00
93_A147_G1.7791.00
146_A159_P1.7771.00
42_E46_E1.7741.00
142_S146_A1.7391.00
13_S16_V1.6561.00
28_L72_Q1.6531.00
146_A150_K1.5891.00
21_K25_S1.5851.00
24_L68_A1.5581.00
27_A31_F1.5411.00
41_L56_L1.5261.00
51_S54_N1.5251.00
43_Q47_L1.5091.00
29_D33_Q1.4991.00
41_L52_K1.4901.00
39_T44_I1.4891.00
20_K58_Y1.4861.00
28_L73_I1.4721.00
68_A71_R1.4701.00
59_F68_A1.4581.00
43_Q46_E1.4541.00
35_G39_T1.4361.00
146_A149_V1.4331.00
40_R43_Q1.4281.00
165_M169_S1.4251.00
27_A65_L1.3911.00
147_G151_S1.3691.00
149_V156_P1.3691.00
28_L69_V1.3651.00
26_A30_T1.3551.00
18_A22_A1.3521.00
35_G38_G1.3511.00
67_I71_R1.3471.00
72_Q76_I1.3391.00
34_F38_G1.2871.00
82_K140_E1.2841.00
54_N57_Y1.2831.00
71_R129_E1.2721.00
50_V54_N1.2521.00
148_W153_K1.2471.00
41_L55_L1.2391.00
148_W154_L1.2031.00
64_A68_A1.2021.00
92_A96_E1.2021.00
25_S72_Q1.1941.00
80_P100_L1.1721.00
95_K99_R1.1711.00
18_A21_K1.1551.00
31_F36_F1.1371.00
27_A69_V1.1371.00
52_K56_L1.1311.00
149_V157_I1.1241.00
144_L148_W1.1211.00
67_I129_E1.1201.00
138_I164_F1.1181.00
138_I142_S1.1041.00
26_A48_A1.0951.00
28_L32_S1.0911.00
63_E67_I1.0761.00
24_L59_F1.0751.00
34_F47_L1.0681.00
158_D161_H1.0611.00
55_L65_L1.0601.00
93_A144_L1.0511.00
96_E99_R1.0511.00
56_L61_S1.0481.00
24_L72_Q1.0481.00
51_S57_Y1.0411.00
91_L95_K1.0371.00
25_S29_D1.0331.00
19_K58_Y1.0231.00
140_E143_A1.0191.00
24_L69_V1.0161.00
53_T57_Y1.0051.00
168_A172_H1.0031.00
88_F96_E1.0011.00
71_R75_D0.9921.00
64_A67_I0.9911.00
112_S115_F0.9811.00
157_I162_L0.9771.00
36_F66_Y0.9761.00
54_N58_Y0.9721.00
63_E123_A0.9701.00
142_S159_P0.9571.00
44_I65_L0.9561.00
135_K139_D0.9541.00
19_K50_V0.9471.00
143_A147_G0.9431.00
16_V57_Y0.9341.00
29_D110_Q0.9271.00
90_P151_S0.9191.00
96_E100_L0.9161.00
100_L103_E0.9161.00
149_V159_P0.9141.00
73_I76_I0.9091.00
92_A95_K0.9081.00
15_A18_A0.9071.00
144_L147_G0.9071.00
80_P83_A0.9041.00
78_L82_K0.9031.00
78_L136_A0.9001.00
129_E132_G0.8971.00
99_R195_N0.8911.00
68_A72_Q0.8891.00
13_S17_S0.8871.00
17_S21_K0.8811.00
22_A25_S0.8801.00
160_Q164_F0.8721.00
90_P148_W0.8601.00
177_A180_V0.8591.00
45_A52_K0.8521.00
147_G150_K0.8511.00
132_G136_A0.8501.00
89_A153_K0.8501.00
72_Q75_D0.8491.00
139_D143_A0.8491.00
78_L140_E0.8471.00
46_E52_K0.8441.00
52_K57_Y0.8391.00
136_A140_E0.8391.00
127_M131_T0.8391.00
104_V108_Y0.8351.00
111_A114_L0.8321.00
23_I55_L0.8301.00
128_D132_G0.8081.00
63_E125_L0.8061.00
22_A48_A0.8041.00
142_S163_I0.8021.00
23_I48_A0.8011.00
138_I160_Q0.8001.00
124_P128_D0.7991.00
14_R18_A0.7981.00
129_E133_D0.7961.00
145_I166_I0.7961.00
87_D93_A0.7891.00
143_A146_A0.7891.00
159_P163_I0.7851.00
84_F96_E0.7801.00
113_R116_C0.7771.00
30_T33_Q0.7751.00
76_I79_A0.7741.00
149_V154_L0.7731.00
139_D142_S0.7661.00
34_F39_T0.7651.00
149_V152_G0.7651.00
95_K195_N0.7541.00
131_T135_K0.7511.00
108_Y111_A0.7491.00
88_F92_A0.7481.00
122_G125_L0.7471.00
98_I166_I0.7461.00
124_P127_M0.7421.00
24_L28_L0.7411.00
161_H196_Q0.7401.00
115_F118_E0.7351.00
84_F100_L0.7351.00
75_D79_A0.7291.00
83_A100_L0.7231.00
79_A83_A0.7191.00
33_Q43_Q0.7171.00
161_H165_M0.7121.00
16_V19_K0.7011.00
14_R17_S0.6941.00
136_A139_D0.6941.00
32_S110_Q0.6871.00
25_S28_L0.6861.00
99_R103_E0.6851.00
71_R132_G0.6851.00
168_A171_Q0.6821.00
79_A82_K0.6811.00
104_V107_D0.6801.00
145_I159_P0.6751.00
95_K98_I0.6741.00
36_F62_K0.6731.00
176_F179_Q0.6711.00
176_F180_V0.6711.00
41_L62_K0.6691.00
15_A19_K0.6671.00
52_K55_L0.6671.00
110_Q113_R0.6631.00
42_E56_L0.6551.00
103_E107_D0.6521.00
19_K54_N0.6521.00
48_A51_S0.6451.00
113_R117_M0.6361.00
118_E121_A0.6331.00
41_L45_A0.6331.00
80_P104_V0.6321.00
36_F39_T0.6241.00
133_D136_A0.6191.00
145_I149_V0.6191.00
117_M121_A0.6091.00
89_A93_A0.6031.00
71_R133_D0.6021.00
131_T134_L0.5951.00
100_L104_V0.5911.00
169_S172_H0.5891.00
162_L165_M0.5891.00
158_D162_L0.5861.00
165_M168_A0.5851.00
161_H164_F0.5831.00
168_A176_F0.5801.00
171_Q175_D0.5781.00
98_I101_K0.5761.00
36_F63_E0.5741.00
45_A50_V0.5661.00
177_A181_E0.5651.00
23_I58_Y0.5651.00
101_K105_S0.5631.00
37_H121_A0.5591.00
74_L136_A0.5571.00
31_F66_Y0.5561.00
16_V20_K0.5551.00
42_E51_S0.5531.00
82_K85_R0.5531.00
20_K59_F0.5511.00
171_Q174_A0.5411.00
75_D133_D0.5411.00
156_P162_L0.5391.00
101_K171_Q0.5371.00
17_S20_K0.5361.00
102_L106_R0.5331.00
90_P93_A0.5321.00
16_V58_Y0.5291.00
111_A115_F0.5291.00
134_L138_I0.5291.00
125_L128_D0.5271.00
82_K143_A0.5221.00
19_K51_S0.5221.00
169_S173_Y0.5181.00
19_K57_Y0.5181.00
51_S55_L0.5171.00
128_D131_T0.5151.00
90_P153_K0.5111.00
122_G126_L0.5101.00
14_R22_A0.5101.00
48_A52_K0.5101.00
28_L76_I0.5091.00
133_D137_L0.5091.00
93_A148_W0.5071.00
32_S108_Y0.5051.00
14_R19_K0.5051.00
140_E144_L0.5051.00
19_K23_I0.5001.00
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  
4jykA 2 0.9481 100 0.171 Contact Map
3npiA 2 0.9292 100 0.223 Contact Map
2qtqA 2 0.9481 100 0.24 Contact Map
3cwrA 2 0.9009 100 0.247 Contact Map
3g1oA 2 0.8915 100 0.251 Contact Map
3gziA 2 0.9434 100 0.252 Contact Map
3f0cA 2 0.9057 100 0.255 Contact Map
3dewA 2 0.9009 100 0.259 Contact Map
3dcfA 2 0.8585 100 0.262 Contact Map
3qqaA 2 0.9151 100 0.263 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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