GREMLIN Database
YFIF - Uncharacterized HTH-type transcriptional regulator YfiF
UniProt: P54722 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 314 (252)
Sequences: 26536 (22830)
Seq/√Len: 1438.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
247_A279_I3.3041.00
232_V240_N3.2291.00
199_K241_E3.1631.00
255_L263_E3.1491.00
243_I279_I3.0891.00
209_T219_G2.8401.00
245_K248_E2.8321.00
201_N204_Q2.7481.00
240_N278_K2.6781.00
197_H201_N2.6221.00
275_F286_F2.4541.00
246_A271_F2.4221.00
249_L263_E2.2961.00
226_F237_F2.2121.00
249_L264_I2.1821.00
60_Y67_T2.1741.00
281_S289_L2.1431.00
194_V222_L2.0901.00
207_K210_D2.0831.00
198_I238_V2.0021.00
255_L259_E1.9241.00
235_S239_Q1.9151.00
60_Y69_P1.8981.00
194_V215_F1.8951.00
62_L67_T1.8691.00
249_L255_L1.8611.00
202_L241_E1.8481.00
197_H214_H1.8361.00
191_L230_L1.8241.00
243_I278_K1.8011.00
195_K230_L1.7851.00
250_L257_I1.7811.00
159_L162_A1.7521.00
247_A286_F1.7391.00
211_V234_Y1.7381.00
268_V272_T1.7331.00
58_E69_P1.7311.00
208_L223_S1.7171.00
232_V236_E1.6761.00
196_L200_D1.6681.00
56_R93_F1.6641.00
256_S259_E1.6391.00
274_V277_A1.6351.00
197_H206_L1.6311.00
234_Y238_V1.6071.00
221_H225_L1.5991.00
248_E252_S1.5981.00
55_V95_F1.5951.00
222_L234_Y1.5841.00
241_E245_K1.5801.00
221_H224_R1.5701.00
270_Y274_V1.5651.00
199_K237_F1.5511.00
58_E71_R1.5391.00
259_E263_E1.5271.00
258_K268_V1.4991.00
284_G288_S1.4891.00
210_D214_H1.4771.00
258_K262_E1.4701.00
134_G138_K1.4671.00
203_S263_E1.4571.00
245_K249_L1.4561.00
202_L245_K1.4431.00
64_G82_H1.4361.00
281_S285_L1.4351.00
246_A264_I1.4311.00
198_I241_E1.4261.00
217_I221_H1.4241.00
266_F274_V1.4221.00
209_T213_S1.4071.00
188_S229_E1.4071.00
245_K264_I1.4041.00
220_R224_R1.3971.00
162_A166_S1.3971.00
60_Y87_K1.3941.00
71_R74_T1.3891.00
260_I264_I1.3891.00
223_S234_Y1.3881.00
259_E262_E1.3851.00
195_K199_K1.3701.00
62_L85_Q1.3651.00
253_T287_R1.3351.00
269_H272_T1.3331.00
241_E244_N1.3251.00
219_G223_S1.3151.00
240_N244_N1.3001.00
49_Y80_P1.2941.00
217_I222_L1.2931.00
272_T282_S1.2901.00
204_Q210_D1.2881.00
233_S236_E1.2791.00
255_L260_I1.2751.00
239_Q274_V1.2681.00
56_R72_E1.2621.00
147_P152_D1.2401.00
218_S221_H1.2401.00
158_H165_L1.2371.00
190_L217_I1.2301.00
158_H161_H1.2001.00
272_T284_G1.1971.00
285_L288_S1.1881.00
79_K82_H1.1871.00
158_H162_A1.1851.00
194_V211_V1.1781.00
138_K142_L1.1571.00
44_H84_H1.1501.00
247_A251_K1.1381.00
273_R277_A1.1341.00
135_L139_T1.1211.00
189_A193_E1.1101.00
50_E84_H1.1071.00
208_L234_Y1.1011.00
284_G287_R1.0991.00
190_L215_F1.0911.00
244_N247_A1.0901.00
225_L228_A1.0831.00
46_H84_H1.0711.00
55_V93_F1.0691.00
206_L211_V1.0681.00
282_S285_L1.0671.00
155_I162_A1.0591.00
211_V214_H1.0471.00
135_L138_K1.0431.00
161_H165_L1.0411.00
235_S270_Y1.0391.00
251_K290_Y1.0381.00
220_R223_S1.0341.00
195_K237_F1.0291.00
212_A219_G1.0281.00
123_I126_Q1.0241.00
197_H215_F1.0151.00
155_I159_L1.0141.00
257_I260_I1.0101.00
203_S245_K1.0081.00
210_D213_S1.0021.00
243_I274_V0.9901.00
193_E214_H0.9871.00
225_L229_E0.9841.00
208_L219_G0.9821.00
192_T196_L0.9801.00
285_L289_L0.9791.00
270_Y273_R0.9721.00
274_V278_K0.9721.00
198_I234_Y0.9631.00
272_T276_S0.9621.00
239_Q277_A0.9601.00
253_T260_I0.9581.00
215_F222_L0.9571.00
236_E240_N0.9401.00
190_L225_L0.9391.00
157_S161_H0.9381.00
247_A275_F0.9311.00
249_L260_I0.9291.00
59_G69_P0.9281.00
236_E239_Q0.9241.00
59_G70_L0.9241.00
62_L87_K0.9231.00
54_V59_G0.9221.00
132_P166_S0.9221.00
43_L83_L0.9211.00
193_E215_F0.9201.00
112_K115_E0.9021.00
202_L238_V0.8971.00
53_Y75_I0.8941.00
242_K264_I0.8941.00
46_H50_E0.8941.00
267_S273_R0.8931.00
193_E196_L0.8931.00
261_A268_V0.8921.00
279_I286_F0.8911.00
205_P210_D0.8851.00
243_I271_F0.8841.00
197_H211_V0.8791.00
250_L260_I0.8731.00
127_L130_G0.8621.00
276_S282_S0.8611.00
59_G92_L0.8601.00
217_I225_L0.8591.00
139_T143_Q0.8581.00
239_Q278_K0.8561.00
250_L287_R0.8481.00
202_L206_L0.8411.00
191_L225_L0.8381.00
101_L105_Q0.8301.00
194_V226_F0.8301.00
281_S286_F0.8301.00
123_I127_L0.8281.00
132_P135_L0.8211.00
139_T162_A0.8201.00
194_V197_H0.8191.00
191_L194_V0.8171.00
226_F230_L0.8151.00
154_E157_S0.8121.00
61_Y76_F0.8101.00
201_N210_D0.8071.00
187_S228_A0.8031.00
198_I237_F0.8021.00
237_F241_E0.7991.00
165_L169_Q0.7981.00
246_A249_L0.7941.00
43_L85_Q0.7941.00
191_L229_E0.7921.00
202_L264_I0.7921.00
54_V57_G0.7921.00
226_F234_Y0.7881.00
49_Y77_L0.7831.00
139_T159_L0.7791.00
235_S238_V0.7771.00
276_S285_L0.7721.00
52_C96_Y0.7701.00
132_P136_L0.7641.00
130_G134_G0.7601.00
131_E135_L0.7601.00
131_E134_G0.7531.00
223_S227_A0.7511.00
50_E98_A0.7491.00
211_V222_L0.7431.00
201_N214_H0.7411.00
260_I287_R0.7401.00
223_S233_S0.7381.00
188_S192_T0.7311.00
194_V234_Y0.7301.00
224_R228_A0.7261.00
122_F126_Q0.7251.00
236_E278_K0.7231.00
154_E161_H0.7231.00
269_H282_S0.7201.00
63_E66_R0.7091.00
199_K245_K0.7061.00
206_L242_K0.7061.00
192_T195_K0.7021.00
139_T142_L0.7011.00
155_I158_H0.6991.00
267_S270_Y0.6961.00
257_I284_G0.6951.00
243_I266_F0.6951.00
51_I77_L0.6951.00
238_V242_K0.6921.00
62_L65_D0.6881.00
70_L76_F0.6851.00
194_V214_H0.6851.00
112_K116_E0.6851.00
185_H188_S0.6851.00
202_L242_K0.6831.00
162_A165_L0.6831.00
54_V70_L0.6821.00
153_K157_S0.6811.00
166_S170_T0.6811.00
188_S225_L0.6791.00
275_F281_S0.6761.00
136_L140_L0.6751.00
141_M145_A0.6671.00
61_Y86_I0.6661.00
136_L159_L0.6601.00
246_A260_I0.6591.00
156_L159_L0.6591.00
206_L210_D0.6561.00
155_I165_L0.6561.00
132_P139_T0.6531.00
59_G86_I0.6471.00
187_S190_L0.6391.00
256_S260_I0.6391.00
267_S277_A0.6391.00
122_F125_M0.6391.00
56_R91_G0.6381.00
269_H273_R0.6381.00
74_T124_T0.6371.00
244_N278_K0.6361.00
136_L139_T0.6331.00
126_Q129_D0.6331.00
49_Y52_C0.6321.00
52_C76_F0.6311.00
223_S235_S0.6301.00
142_L146_Q0.6301.00
251_K286_F0.6281.00
190_L193_E0.6281.00
261_A266_F0.6261.00
197_H210_D0.6221.00
232_V237_F0.6211.00
143_Q169_Q0.6181.00
53_Y137_W0.6181.00
52_C61_Y0.6171.00
53_Y130_G0.6171.00
227_A233_S0.6161.00
208_L235_S0.6141.00
211_V215_F0.6141.00
248_E251_K0.6141.00
114_M117_V0.6111.00
254_N260_I0.6091.00
154_E158_H0.6081.00
271_F283_P0.6071.00
152_D156_L0.6051.00
238_V241_E0.6051.00
135_L142_L0.5991.00
121_P124_T0.5991.00
115_E119_Q0.5991.00
268_V271_F0.5951.00
230_L237_F0.5931.00
144_A147_P0.5921.00
194_V198_I0.5881.00
111_I115_E0.5881.00
249_L252_S0.5871.00
63_E78_S0.5821.00
191_L195_K0.5811.00
195_K226_F0.5801.00
212_A215_F0.5741.00
52_C78_S0.5731.00
198_I206_L0.5721.00
170_T174_Y0.5721.00
40_N87_K0.5701.00
244_N279_I0.5681.00
262_E268_V0.5661.00
45_K83_L0.5651.00
247_A281_S0.5631.00
78_S84_H0.5611.00
196_L199_K0.5601.00
97_V101_L0.5591.00
51_I75_I0.5571.00
215_F219_G0.5571.00
208_L220_R0.5561.00
266_F270_Y0.5551.00
187_S229_E0.5551.00
191_L222_L0.5551.00
56_R78_S0.5531.00
206_L238_V0.5501.00
205_P242_K0.5481.00
67_T87_K0.5481.00
48_F98_A0.5471.00
113_V117_V0.5471.00
113_V116_E0.5471.00
110_W113_V0.5451.00
213_S216_H0.5421.00
189_A192_T0.5411.00
54_V94_L0.5401.00
52_C94_L0.5371.00
154_E165_L0.5371.00
58_E90_T0.5371.00
86_I94_L0.5351.00
239_Q270_Y0.5321.00
60_Y63_E0.5321.00
254_N287_R0.5311.00
143_Q147_P0.5311.00
224_R227_A0.5311.00
159_L166_S0.5301.00
121_P125_M0.5301.00
146_Q149_N0.5291.00
244_N248_E0.5291.00
54_V92_L0.5281.00
191_L215_F0.5261.00
50_E78_S0.5251.00
53_Y73_Q0.5251.00
271_F275_F0.5251.00
61_Y78_S0.5251.00
168_I172_L0.5251.00
239_Q243_I0.5241.00
194_V225_L0.5231.00
101_L104_D0.5221.00
149_N152_D0.5211.00
190_L194_V0.5201.00
191_L226_F0.5191.00
125_M129_D0.5191.00
136_L166_S0.5181.00
74_T126_Q0.5121.00
80_P101_L0.5091.00
52_C80_P0.5081.00
54_V74_T0.5081.00
222_L225_L0.5071.00
55_V138_K0.5071.00
143_Q155_I0.5051.00
78_S92_L0.5041.00
159_L164_I0.5041.00
52_C86_I0.5041.00
171_F175_A0.5041.00
222_L230_L0.5031.00
246_A275_F0.5021.00
64_G83_L0.5021.00
171_F174_Y0.5001.00
198_I211_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  
3gbgA 1 0.7962 100 0.32 Contact Map
3oouA 1 0.3312 100 0.538 Contact Map
1bl0A 1 0.3662 100 0.541 Contact Map
3oioA 1 0.3535 100 0.542 Contact Map
3mn2A 1 0.3344 100 0.546 Contact Map
3w6vA 1 0.3503 100 0.548 Contact Map
3mklA 1 0.3503 100 0.548 Contact Map
2k9sA 1 0.3344 99.9 0.551 Contact Map
3lsgA 2 0.3217 99.9 0.557 Contact Map
1d5yA 1 0.4045 99.9 0.574 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.

Page generated in 0.0096 seconds.