GREMLIN Database
YJJM - Probable HTH-type transcriptional regulator YjjM
UniProt: P39399 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12589
Length: 304 (233)
Sequences: 342 (278)
Seq/√Len: 18.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
217_H262_H4.8711.00
173_Q278_T4.4851.00
217_H284_H4.3321.00
168_E217_H3.6161.00
162_E226_N3.5951.00
261_E284_H3.5321.00
189_K270_I3.3571.00
112_E123_P3.3421.00
276_D280_A3.2380.99
262_H284_H3.0890.99
92_E132_K3.0240.99
168_E262_H2.9280.99
172_L281_L2.6540.97
273_S276_D2.4780.96
119_A157_A2.3790.95
91_F119_A2.3640.95
105_R108_E2.3210.94
164_R213_D2.2800.94
159_Q227_I2.2560.94
181_H184_R2.2380.93
176_L269_L2.1870.92
172_L176_L2.1450.92
164_R168_E2.1370.92
96_F136_Y2.0720.90
177_N272_R1.9490.87
95_F147_W1.9420.87
191_M212_L1.9330.87
168_E213_D1.9190.86
141_S147_W1.8680.85
131_L134_G1.8310.84
165_E289_K1.8080.83
216_F220_L1.7560.81
122_S127_R1.7410.80
114_Q265_I1.7290.80
205_S208_M1.7080.79
168_E281_L1.6980.79
99_I138_L1.6950.78
265_I277_A1.6830.78
161_F288_A1.6400.76
92_E136_Y1.6400.76
105_R110_F1.5570.72
194_R215_D1.5530.72
214_R240_F1.5320.71
209_F213_D1.5320.71
90_V94_A1.5310.71
125_V162_E1.5130.70
196_R263_M1.5030.69
168_E284_H1.4890.69
244_Y284_H1.4820.68
112_E284_H1.4700.68
105_R186_L1.4620.67
121_V191_M1.4610.67
192_L266_L1.4550.67
125_V129_Y1.4500.66
112_E138_L1.4460.66
91_F159_Q1.4290.65
277_A281_L1.4270.65
217_H261_E1.4000.64
124_V172_L1.3940.63
213_D262_H1.3760.62
134_G139_I1.3540.61
254_R261_E1.3460.60
272_R294_R1.3440.60
213_D241_H1.3400.60
91_F127_R1.3240.59
226_N284_H1.3140.59
111_S160_L1.3070.58
133_F139_I1.3070.58
192_L213_D1.3010.58
119_A139_I1.3000.58
70_K183_P1.2680.56
159_Q226_N1.2650.56
260_D264_T1.2610.55
213_D236_I1.2590.55
187_Q197_L1.2570.55
130_L147_W1.2490.55
244_Y254_R1.2490.55
276_D279_L1.2280.53
130_L212_L1.2110.52
93_Q265_I1.1960.51
119_A267_S1.1870.51
138_L284_H1.1800.50
98_M118_A1.1700.50
78_A273_S1.1700.50
268_A280_A1.1580.49
91_F116_A1.1460.48
136_Y224_A1.1400.48
154_Q269_L1.1370.48
112_E226_N1.1300.47
110_F139_I1.1290.47
110_F119_A1.1260.47
112_E127_R1.1240.47
163_L167_L1.1210.47
265_I281_L1.1160.46
68_A182_D1.1140.46
265_I280_A1.1050.46
216_F262_H1.0950.45
165_E282_R1.0800.44
213_D221_L1.0680.43
125_V145_G1.0400.42
171_S277_A1.0370.42
139_I150_K1.0270.41
102_R145_G1.0030.40
125_V213_D0.9970.39
168_E212_L0.9900.39
130_L139_I0.9840.38
189_K211_Q0.9740.38
264_T283_N0.9740.38
105_R268_A0.9720.38
86_E105_R0.9700.38
266_L282_R0.9690.38
107_G128_E0.9680.38
193_E197_L0.9630.37
152_F171_S0.9610.37
179_P184_R0.9560.37
110_F149_M0.9540.37
175_F178_L0.9520.37
164_R221_L0.9440.36
74_D118_A0.9430.36
269_L277_A0.9380.36
89_K193_E0.9350.36
226_N241_H0.9280.35
91_F122_S0.9240.35
91_F102_R0.9200.35
62_G66_V0.9180.35
267_S273_S0.9140.34
133_F216_F0.9110.34
115_L126_V0.9100.34
193_E271_C0.9070.34
164_R285_L0.9060.34
119_A133_F0.9050.34
164_R281_L0.9020.34
195_H258_A0.9000.34
130_L258_A0.9000.34
176_L281_L0.8960.33
159_Q265_I0.8920.33
74_D283_N0.8860.33
74_D267_S0.8850.33
163_L171_S0.8830.33
125_V136_Y0.8830.33
144_R152_F0.8790.33
122_S125_V0.8770.32
265_I268_A0.8770.32
120_G172_L0.8770.32
177_N208_M0.8750.32
257_I267_S0.8750.32
139_I234_E0.8720.32
244_Y261_E0.8710.32
89_K94_A0.8590.31
168_E285_L0.8580.31
85_S105_R0.8570.31
171_S221_L0.8550.31
197_L275_L0.8500.31
72_D181_H0.8480.31
115_L236_I0.8440.31
117_R227_I0.8380.30
177_N274_D0.8340.30
131_L139_I0.8340.30
102_R127_R0.8270.30
133_F165_E0.8220.30
89_K149_M0.8130.29
186_L190_T0.8100.29
275_L279_L0.8070.29
133_F149_M0.8040.29
126_V129_Y0.8000.28
124_V131_L0.7990.28
125_V142_E0.7980.28
193_E222_S0.7970.28
264_T268_A0.7930.28
64_D272_R0.7920.28
96_F122_S0.7830.28
220_L278_T0.7830.28
168_E251_L0.7780.27
167_L233_L0.7730.27
272_R282_R0.7700.27
135_R153_D0.7680.27
80_T132_K0.7630.27
80_T172_L0.7620.27
128_E160_L0.7610.26
91_F106_P0.7560.26
217_H281_L0.7450.26
176_L274_D0.7370.25
209_F258_A0.7370.25
88_N213_D0.7320.25
205_S290_Q0.7300.25
281_L285_L0.7270.25
198_L254_R0.7260.25
160_L258_A0.7260.25
186_L274_D0.7240.25
125_V144_R0.7240.25
91_F147_W0.7180.24
244_Y258_A0.7130.24
83_S293_I0.7130.24
77_F270_I0.7130.24
96_F188_A0.7120.24
159_Q269_L0.7120.24
120_G267_S0.7100.24
117_R272_R0.7100.24
99_I264_T0.7060.24
109_T112_E0.7040.24
91_F121_V0.7030.24
98_M104_L0.7020.24
151_Q178_L0.7010.24
124_V147_W0.6970.24
165_E285_L0.6960.23
198_L272_R0.6930.23
125_V163_L0.6920.23
103_Q227_I0.6890.23
118_A173_Q0.6860.23
261_E287_S0.6830.23
63_N66_V0.6790.23
112_E148_S0.6710.22
164_R216_F0.6700.22
177_N264_T0.6690.22
99_I163_L0.6680.22
155_S167_L0.6680.22
209_F228_F0.6630.22
129_Y163_L0.6630.22
95_F148_S0.6610.22
153_D183_P0.6590.22
67_I83_S0.6550.22
142_E145_G0.6550.22
170_H278_T0.6540.22
125_V242_F0.6530.22
196_R200_D0.6510.22
68_A81_T0.6480.21
114_Q276_D0.6470.21
162_E289_K0.6460.21
162_E284_H0.6450.21
122_S225_D0.6440.21
187_Q275_L0.6430.21
213_D228_F0.6430.21
99_I150_K0.6420.21
102_R124_V0.6410.21
272_R296_I0.6380.21
71_P126_V0.6370.21
101_Q223_A0.6330.21
140_H159_Q0.6330.21
244_Y292_M0.6330.21
112_E221_L0.6330.21
166_M272_R0.6280.21
82_A197_L0.6280.21
166_M170_H0.6250.20
125_V152_F0.6240.20
122_S146_Q0.6230.20
261_E273_S0.6220.20
125_V143_K0.6210.20
162_E174_H0.6190.20
270_I286_N0.6150.20
193_E220_L0.6120.20
128_E153_D0.6100.20
248_E292_M0.6090.20
164_R192_L0.6090.20
240_F254_R0.6080.20
91_F132_K0.6030.20
82_A128_E0.6020.20
96_F228_F0.6000.19
117_R257_I0.5940.19
268_A282_R0.5930.19
69_R174_H0.5930.19
123_P269_L0.5920.19
139_I290_Q0.5890.19
106_P155_S0.5890.19
77_F219_L0.5850.19
64_D67_I0.5830.19
255_N285_L0.5820.19
80_T133_F0.5810.19
122_S129_Y0.5800.19
115_L150_K0.5800.19
125_V132_K0.5800.19
157_A185_W0.5780.19
95_F240_F0.5780.19
163_L170_H0.5780.19
186_L279_L0.5760.19
253_Q272_R0.5760.19
172_L274_D0.5760.19
100_N155_S0.5750.19
175_F184_R0.5750.19
79_C100_N0.5730.18
129_Y149_M0.5710.18
137_N161_F0.5710.18
267_S283_N0.5700.18
156_Y239_I0.5700.18
91_F172_L0.5680.18
138_L226_N0.5680.18
139_I284_H0.5670.18
174_H181_H0.5650.18
131_L141_S0.5650.18
94_A114_Q0.5640.18
230_D270_I0.5640.18
200_D278_T0.5620.18
195_H237_S0.5610.18
123_P133_F0.5590.18
87_Q121_V0.5580.18
197_L272_R0.5570.18
129_Y250_D0.5570.18
124_V181_H0.5560.18
126_V141_S0.5550.18
160_L167_L0.5550.18
89_K207_R0.5550.18
142_E172_L0.5550.18
79_C224_A0.5540.18
122_S149_M0.5530.18
102_R171_S0.5520.18
162_E178_L0.5510.18
276_D294_R0.5500.18
105_R274_D0.5490.18
217_H226_N0.5480.18
237_S241_H0.5480.18
116_A288_A0.5460.17
169_T213_D0.5460.17
174_H207_R0.5450.17
71_P197_L0.5440.17
182_D264_T0.5410.17
223_A253_Q0.5410.17
173_Q277_A0.5400.17
111_S265_I0.5400.17
122_S174_H0.5370.17
81_T181_H0.5360.17
93_Q220_L0.5360.17
92_E152_F0.5340.17
80_T249_S0.5320.17
128_E255_N0.5320.17
147_W280_A0.5290.17
245_Q254_R0.5280.17
160_L228_F0.5270.17
69_R267_S0.5260.17
172_L188_A0.5250.17
85_S283_N0.5250.17
210_S243_H0.5240.17
102_R116_A0.5230.17
163_L281_L0.5210.17
177_N182_D0.5210.17
64_D215_D0.5210.17
191_M258_A0.5190.17
88_N143_K0.5170.16
174_H220_L0.5150.16
236_I239_I0.5150.16
158_E293_I0.5150.16
220_L225_D0.5150.16
82_A97_T0.5140.16
78_A117_R0.5140.16
120_G201_N0.5130.16
76_G93_Q0.5120.16
172_L278_T0.5120.16
97_T257_I0.5080.16
195_H213_D0.5060.16
114_Q229_F0.5020.16
174_H226_N0.5020.16
171_S244_Y0.5000.16
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  
3sxyA 2 0.6579 100 0.45 Contact Map
3ihuA 1 0.6711 100 0.452 Contact Map
2hs5A 1 0.6809 100 0.455 Contact Map
3c7jA 4 0.7763 100 0.457 Contact Map
4p9fA 1 0.6908 100 0.459 Contact Map
4p96A 2 0.7303 100 0.475 Contact Map
2di3A 2 0.6842 100 0.48 Contact Map
1hw1A 2 0.6776 100 0.498 Contact Map
3sxmA 2 0.4441 99.8 0.722 Contact Map
3by6A 2 0.4046 99.8 0.728 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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