GREMLIN Database
YHAJ - Uncharacterized HTH-type transcriptional regulator YhaJ
UniProt: P67660 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12749
Length: 298 (279)
Sequences: 79586 (58100)
Seq/√Len: 3478.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
76_V80_A3.5711.00
21_R30_E3.3511.00
165_R292_P2.6191.00
102_V146_A2.4791.00
73_R87_D2.4131.00
17_A30_E2.2631.00
180_H197_Y2.2351.00
235_L242_A2.2271.00
169_T270_D2.2091.00
98_H128_A2.1711.00
166_K169_T2.1481.00
171_M246_Y2.1361.00
166_K270_D2.1001.00
98_H126_Q2.0781.00
51_V66_V2.0571.00
26_A29_D2.0551.00
14_V41_T2.0291.00
20_R75_R2.0011.00
190_S193_T2.0011.00
169_T268_E1.9811.00
118_K290_E1.9751.00
16_D75_R1.9601.00
73_R80_A1.9571.00
236_L257_R1.9521.00
100_T128_A1.9361.00
16_D71_L1.9291.00
232_R252_D1.9111.00
17_A20_R1.9031.00
16_D20_R1.9011.00
17_A21_R1.8771.00
173_V246_Y1.8701.00
19_D63_F1.8661.00
14_V38_L1.8551.00
176_A261_V1.8541.00
77_L81_A1.8431.00
200_I240_G1.8341.00
71_L75_R1.8031.00
24_F42_M1.7431.00
55_D62_K1.7201.00
236_L252_D1.7161.00
137_A149_V1.7061.00
70_L84_L1.6841.00
173_V260_V1.6781.00
69_M87_D1.6651.00
164_S272_I1.6631.00
140_R145_R1.6261.00
19_D71_L1.5981.00
119_L287_C1.5841.00
21_R26_A1.5651.00
20_R30_E1.5601.00
198_R222_R1.5571.00
16_D74_G1.5541.00
163_N277_R1.5371.00
15_M71_L1.5121.00
14_V33_R1.4991.00
11_A41_T1.4981.00
139_E143_Q1.4981.00
11_A48_E1.4751.00
119_L125_T1.4671.00
185_E193_T1.4661.00
165_R275_W1.4641.00
212_L216_L1.4621.00
25_A35_P1.4611.00
73_R76_V1.4551.00
23_S26_A1.4401.00
94_G124_N1.4401.00
52_V55_D1.4271.00
11_A44_K1.4261.00
34_V37_A1.4241.00
8_T11_A1.4241.00
65_N68_R1.4131.00
280_M284_K1.4031.00
163_N275_W1.4031.00
17_A31_L1.3971.00
151_A274_A1.3961.00
153_D272_I1.3851.00
288_L292_P1.3831.00
16_D78_L1.3781.00
73_R83_K1.3721.00
109_T229_E1.3721.00
275_W288_L1.3661.00
77_L84_L1.3541.00
178_P257_R1.3351.00
100_T130_I1.3261.00
96_E124_N1.3251.00
140_R146_A1.3121.00
286_W289_R1.3071.00
273_M288_L1.3071.00
209_R216_L1.2981.00
57_S62_K1.2971.00
142_E161_E1.2951.00
141_L149_V1.2951.00
9_L81_A1.2911.00
118_K121_A1.2861.00
80_A83_K1.2801.00
170_L247_P1.2761.00
70_L85_T1.2701.00
148_I284_K1.2531.00
148_I273_M1.2521.00
121_A290_E1.2491.00
176_A241_V1.2431.00
231_K242_A1.2411.00
209_R213_T1.2381.00
197_Y241_V1.2321.00
72_E76_V1.2291.00
48_E85_T1.2281.00
73_R84_L1.2091.00
233_Q236_L1.2071.00
178_P259_R1.2031.00
246_Y250_E1.1881.00
69_M72_E1.1821.00
246_Y260_V1.1711.00
117_D120_A1.1681.00
166_K272_I1.1681.00
15_M54_F1.1671.00
68_R72_E1.1611.00
43_Q47_E1.1581.00
33_R37_A1.1551.00
164_S274_A1.1441.00
250_E254_A1.1431.00
252_D257_R1.1401.00
176_A180_H1.1361.00
15_M19_D1.1341.00
40_Y44_K1.1191.00
117_D237_A1.1131.00
40_Y43_Q1.1111.00
128_A224_T1.0961.00
180_H183_H1.0931.00
122_K286_W1.0931.00
276_R279_S1.0891.00
15_M53_L1.0871.00
76_V83_K1.0751.00
289_R292_P1.0711.00
39_S43_Q1.0711.00
99_L287_C1.0701.00
24_F61_T1.0651.00
175_V260_V1.0641.00
69_M73_R1.0641.00
188_P264_E1.0621.00
108_P131_T1.0601.00
18_I27_A1.0591.00
12_L74_G1.0591.00
17_A27_A1.0541.00
10_E13_R1.0481.00
77_L80_A1.0471.00
114_P237_A1.0461.00
198_R220_Q1.0451.00
119_L290_E1.0401.00
285_S289_R1.0351.00
225_V231_K1.0331.00
41_T44_K1.0311.00
189_L193_T1.0301.00
115_L291_I1.0281.00
260_V263_P1.0251.00
200_I231_K1.0231.00
13_R82_D1.0231.00
142_E159_S1.0181.00
165_R288_L1.0171.00
191_E265_S1.0141.00
233_Q237_A1.0121.00
232_R236_L1.0031.00
212_L217_L1.0021.00
177_A238_G1.0001.00
63_F67_G0.9891.00
85_T89_E0.9881.00
171_M268_E0.9781.00
119_L122_K0.9781.00
251_K255_E0.9741.00
82_D85_T0.9661.00
79_E83_K0.9611.00
130_I140_R0.9571.00
175_V249_V0.9561.00
174_Y241_V0.9551.00
14_V31_L0.9541.00
33_R38_L0.9521.00
19_D54_F0.9521.00
102_V137_A0.9511.00
70_L74_G0.9391.00
18_I24_F0.9341.00
82_D86_T0.9331.00
290_E293_K0.9311.00
15_M63_F0.9271.00
225_V234_A0.9241.00
140_R143_Q0.9221.00
201_A221_P0.9221.00
44_K47_E0.9161.00
27_A38_L0.9151.00
281_G284_K0.9111.00
176_A182_I0.9091.00
213_T216_L0.9051.00
121_A293_K0.8991.00
15_M45_L0.8971.00
207_R210_P0.8921.00
115_L290_E0.8911.00
69_M91_L0.8811.00
51_V88_A0.8801.00
26_A30_E0.8801.00
54_F61_T0.8801.00
105_A227_T0.8791.00
19_D67_G0.8721.00
146_A149_V0.8661.00
102_V151_A0.8641.00
72_E75_R0.8621.00
126_Q220_Q0.8611.00
153_D270_D0.8591.00
199_G219_K0.8511.00
249_V252_D0.8501.00
163_N166_K0.8471.00
76_V79_E0.8451.00
210_P213_T0.8441.00
22_G62_K0.8431.00
195_V217_L0.8401.00
193_T196_K0.8371.00
10_E41_T0.8371.00
161_E277_R0.8351.00
25_A29_D0.8331.00
31_L38_L0.8291.00
211_V215_Q0.8281.00
183_H259_R0.8271.00
101_I148_I0.8231.00
162_I274_A0.8201.00
138_W142_E0.8181.00
66_V91_L0.8171.00
208_E211_V0.8161.00
125_T283_A0.8121.00
180_H198_R0.8101.00
210_P214_V0.8101.00
198_R221_P0.8051.00
9_L78_L0.8051.00
66_V88_A0.8051.00
57_S60_R0.8041.00
15_M70_L0.8031.00
289_R293_K0.8011.00
175_V242_A0.7981.00
130_I146_A0.7981.00
102_V149_V0.7971.00
179_D183_H0.7971.00
280_M285_S0.7921.00
81_A85_T0.7881.00
117_D239_L0.7851.00
43_Q52_V0.7831.00
22_G68_R0.7801.00
177_A180_H0.7791.00
208_E212_L0.7781.00
97_T283_A0.7761.00
252_D255_E0.7741.00
35_P39_S0.7741.00
253_I256_G0.7731.00
19_D22_G0.7721.00
177_A239_L0.7711.00
20_R71_L0.7701.00
66_V69_M0.7681.00
80_A84_L0.7671.00
136_G139_E0.7661.00
192_V195_V0.7651.00
83_K87_D0.7611.00
21_R27_A0.7601.00
22_G60_R0.7591.00
18_I42_M0.7571.00
81_A84_L0.7571.00
190_S264_E0.7541.00
234_A239_L0.7541.00
171_M262_S0.7511.00
207_R216_L0.7501.00
97_T125_T0.7481.00
18_I54_F0.7481.00
148_I287_C0.7441.00
11_A14_V0.7381.00
282_E286_W0.7341.00
142_E162_I0.7331.00
24_F38_L0.7331.00
249_V253_I0.7271.00
175_V253_I0.7261.00
55_D64_T0.7231.00
154_M157_R0.7191.00
74_G77_L0.7151.00
175_V244_M0.7141.00
13_R17_A0.7141.00
176_A259_R0.7141.00
84_L88_A0.7111.00
103_T108_P0.7091.00
95_W122_K0.7091.00
18_I38_L0.7081.00
75_R79_E0.7051.00
119_L286_W0.7041.00
89_E92_A0.7001.00
245_P248_M0.6981.00
121_A286_W0.6881.00
190_S265_S0.6871.00
62_K68_R0.6851.00
63_F68_R0.6841.00
236_L255_E0.6801.00
100_T146_A0.6791.00
147_D284_K0.6781.00
286_W290_E0.6771.00
66_V70_L0.6771.00
185_E198_R0.6751.00
227_T230_D0.6751.00
65_N69_M0.6741.00
68_R71_L0.6731.00
182_I185_E0.6721.00
180_H185_E0.6711.00
144_G276_R0.6691.00
55_D60_R0.6681.00
202_V231_K0.6671.00
37_A41_T0.6641.00
253_I260_V0.6641.00
79_E82_D0.6591.00
188_P262_S0.6571.00
46_E51_V0.6561.00
223_L234_A0.6501.00
118_K293_K0.6461.00
70_L88_A0.6451.00
196_K220_Q0.6441.00
100_T147_D0.6431.00
203_A224_T0.6421.00
209_R212_L0.6411.00
46_E56_R0.6401.00
13_R16_D0.6351.00
10_E44_K0.6351.00
179_D238_G0.6331.00
83_K86_T0.6321.00
199_G241_V0.6321.00
182_I197_Y0.6321.00
99_L283_A0.6311.00
179_D259_R0.6291.00
126_Q224_T0.6271.00
74_G78_L0.6241.00
150_I291_I0.6241.00
251_K254_A0.6231.00
29_D32_G0.6191.00
73_R77_L0.6171.00
42_M46_E0.6161.00
103_T112_F0.6151.00
171_M266_T0.6141.00
109_T233_Q0.6121.00
27_A31_L0.6121.00
131_T226_S0.6071.00
282_E285_S0.6021.00
24_F60_R0.6011.00
8_T48_E0.5971.00
174_Y194_R0.5961.00
114_P117_D0.5941.00
112_F115_L0.5931.00
136_G140_R0.5911.00
152_P269_I0.5901.00
174_Y243_T0.5901.00
18_I23_S0.5901.00
86_T90_A0.5881.00
141_L274_A0.5861.00
212_L215_Q0.5841.00
168_Y271_I0.5821.00
131_T227_T0.5811.00
208_E216_L0.5811.00
99_L148_I0.5791.00
13_R78_L0.5781.00
69_M88_A0.5761.00
36_S40_Y0.5751.00
203_A226_S0.5731.00
96_E126_Q0.5731.00
148_I288_L0.5721.00
275_W285_S0.5681.00
287_C291_I0.5671.00
185_E188_P0.5671.00
178_P256_G0.5671.00
49_L70_L0.5661.00
211_V214_V0.5661.00
49_L88_A0.5651.00
63_F71_L0.5651.00
37_A40_Y0.5631.00
10_E14_V0.5581.00
172_N243_T0.5561.00
54_F63_F0.5551.00
234_A240_G0.5551.00
163_N278_D0.5541.00
204_D224_T0.5531.00
15_M67_G0.5521.00
170_L269_I0.5511.00
114_P118_K0.5501.00
34_V40_Y0.5491.00
231_K235_L0.5471.00
180_H241_V0.5461.00
51_V55_D0.5461.00
141_L162_I0.5441.00
174_Y199_G0.5441.00
225_V230_D0.5431.00
97_T124_N0.5431.00
137_A144_G0.5421.00
263_P266_T0.5391.00
97_T122_K0.5371.00
90_A95_W0.5361.00
78_L82_D0.5351.00
116_I127_L0.5351.00
176_A183_H0.5331.00
49_L52_V0.5331.00
167_L273_M0.5321.00
195_V218_D0.5291.00
24_F35_P0.5291.00
244_M249_V0.5291.00
122_K125_T0.5281.00
207_R211_V0.5281.00
153_D164_S0.5261.00
14_V42_M0.5191.00
107_V111_A0.5181.00
139_E145_R0.5161.00
72_E87_D0.5141.00
102_V130_I0.5141.00
188_P193_T0.5111.00
24_F56_R0.5091.00
228_I245_P0.5091.00
78_L81_A0.5091.00
19_D68_R0.5091.00
284_K288_L0.5081.00
52_V66_V0.5051.00
109_T227_T0.5051.00
14_V27_A0.5051.00
73_R88_A0.5011.00
150_I273_M0.5001.00
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  
2esnA 3 0.9799 100 0.124 Contact Map
1ixcA 4 0.9597 100 0.128 Contact Map
1uthA 2 0.7282 100 0.128 Contact Map
2h98A 2 0.6644 100 0.13 Contact Map
3fzvA 4 0.9497 100 0.133 Contact Map
2h9bA 2 0.6644 100 0.134 Contact Map
3fxqA 3 0.9664 100 0.141 Contact Map
1al3A 1 0.6846 100 0.143 Contact Map
4x6gA 4 0.9832 100 0.143 Contact Map
3szpA 3 0.953 100 0.152 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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