GREMLIN Database
YDEL - Uncharacterized HTH-type transcriptional regulator YdeL
UniProt: P96669 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 463 (357)
Sequences: 26780 (18195)
Seq/√Len: 963.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
129_V133_D3.5011.00
370_K447_E3.2981.00
369_R373_A3.0121.00
194_S215_N2.9801.00
160_Y166_H2.7851.00
232_K267_E2.7711.00
255_I259_I2.6491.00
374_I451_R2.6161.00
189_F214_M2.4981.00
388_R401_D2.4941.00
418_H459_A2.4721.00
175_G181_L2.3441.00
452_E456_K2.3411.00
154_L353_K2.2981.00
414_K417_K2.2411.00
150_E349_A2.2171.00
193_I237_N2.1771.00
122_S126_K2.1291.00
378_A454_I2.0901.00
148_E346_L2.0121.00
378_A455_K1.9941.00
265_A272_I1.9921.00
374_I447_E1.9911.00
156_A169_P1.9851.00
130_N350_E1.9811.00
376_L391_G1.9781.00
269_Q299_R1.9701.00
321_L326_L1.9241.00
149_F153_T1.9171.00
446_S449_D1.9121.00
222_D257_R1.8941.00
183_Q187_Q1.8821.00
452_E455_K1.8801.00
414_K460_A1.8641.00
194_S217_V1.8561.00
161_Q358_Q1.8481.00
199_D218_P1.8441.00
376_L380_Q1.8291.00
378_A451_R1.8231.00
407_G410_E1.8231.00
185_L301_I1.8171.00
157_E353_K1.8121.00
109_F453_G1.8031.00
255_I289_P1.7501.00
377_E381_R1.7501.00
254_T257_R1.7351.00
259_I263_K1.7251.00
153_T169_P1.7161.00
220_P230_K1.7061.00
146_L330_H1.6961.00
273_I303_M1.6911.00
154_L157_E1.6801.00
171_Q323_S1.6771.00
230_K233_E1.6541.00
375_V454_I1.6501.00
228_I260_Q1.6401.00
306_F348_L1.6371.00
367_L447_E1.6261.00
355_G359_K1.6241.00
260_Q263_K1.6221.00
232_K260_Q1.6191.00
378_A458_K1.6151.00
125_R129_V1.6121.00
153_T157_E1.6001.00
374_I378_A1.5981.00
126_K130_N1.5851.00
319_M329_G1.5821.00
194_S235_Q1.5771.00
418_H456_K1.5691.00
263_K267_E1.5661.00
104_K419_G1.5641.00
422_I438_V1.5631.00
159_L320_I1.5531.00
191_P213_R1.5431.00
146_L152_R1.5391.00
128_M347_T1.5351.00
378_A381_R1.5341.00
238_L273_I1.5281.00
227_C230_K1.5251.00
380_Q389_I1.5241.00
341_S344_S1.5191.00
157_E161_Q1.5121.00
196_G236_P1.5041.00
199_D220_P1.5011.00
277_Y305_T1.5001.00
367_L370_K1.4871.00
410_E414_K1.4781.00
150_E353_K1.4771.00
349_A353_K1.4711.00
209_F214_M1.4631.00
316_I348_L1.4621.00
229_Q260_Q1.4591.00
401_D437_T1.4591.00
413_E416_K1.4481.00
375_V398_I1.4461.00
167_C320_I1.4431.00
263_K266_A1.4391.00
376_L398_I1.4371.00
380_Q391_G1.4371.00
130_N134_Q1.4371.00
350_E354_N1.4341.00
127_S350_E1.4231.00
149_F169_P1.4221.00
447_E451_R1.4081.00
376_L389_I1.4041.00
408_E426_S1.4031.00
232_K268_N1.3881.00
266_A297_H1.3871.00
154_L349_A1.3801.00
178_N303_M1.3751.00
284_T393_N1.3711.00
264_W270_S1.3701.00
373_A377_E1.3691.00
186_C209_F1.3671.00
259_I294_L1.3461.00
265_A270_S1.3441.00
228_I264_W1.3411.00
410_E413_E1.3381.00
128_M132_L1.3351.00
126_K129_V1.3251.00
195_I209_F1.3201.00
196_G219_I1.2961.00
381_R458_K1.2841.00
255_I294_L1.2831.00
455_K459_A1.2711.00
362_N365_R1.2661.00
264_W268_N1.2651.00
170_E323_S1.2601.00
257_R260_Q1.2591.00
171_Q297_H1.2541.00
449_D452_E1.2471.00
155_I318_Y1.2441.00
162_S358_Q1.2441.00
304_G318_Y1.2391.00
256_N259_I1.2361.00
362_N366_K1.2231.00
333_T337_K1.2181.00
415_A457_L1.2141.00
367_L371_K1.2131.00
409_K426_S1.2121.00
195_I238_L1.2061.00
399_L425_V1.2031.00
152_R156_A1.1881.00
187_Q212_N1.1851.00
451_R455_K1.1831.00
194_S236_P1.1811.00
206_R210_E1.1811.00
139_L346_L1.1751.00
321_L329_G1.1751.00
127_S130_N1.1741.00
290_S293_G1.1721.00
372_R376_L1.1681.00
272_I291_L1.1631.00
125_R133_D1.1571.00
185_L273_I1.1571.00
150_E346_L1.1511.00
350_E353_K1.1501.00
412_I422_I1.1501.00
256_N260_Q1.1441.00
190_E193_I1.1421.00
291_L300_V1.1371.00
155_I174_I1.1371.00
176_A180_I1.1331.00
372_R442_F1.1291.00
366_K369_R1.1201.00
151_L174_I1.1191.00
127_S131_S1.1111.00
327_K331_E1.1101.00
172_V320_I1.1091.00
266_A299_R1.1071.00
328_K331_E1.1061.00
239_V270_S1.0821.00
188_V238_L1.0771.00
401_D436_K1.0751.00
148_E349_A1.0691.00
173_I326_L1.0681.00
156_A172_V1.0671.00
186_C189_F1.0661.00
415_A422_I1.0631.00
282_R288_V1.0581.00
377_E451_R1.0561.00
171_Q326_L1.0551.00
374_I377_E1.0461.00
420_V457_L1.0331.00
168_G323_S1.0261.00
407_G435_T1.0241.00
158_Y162_S1.0241.00
303_M319_M1.0221.00
222_D227_C1.0131.00
181_L303_M1.0071.00
301_I321_L1.0021.00
383_L458_K1.0021.00
224_E257_R0.9981.00
130_N133_D0.9931.00
418_H460_A0.9871.00
125_R132_L0.9861.00
409_K413_E0.9821.00
301_I325_L0.9821.00
412_I424_P0.9791.00
326_L330_H0.9771.00
400_L440_L0.9761.00
229_Q233_E0.9731.00
222_D230_K0.9731.00
168_G171_Q0.9711.00
309_S357_W0.9701.00
165_V292_Q0.9661.00
266_A298_N0.9661.00
205_A240_Y0.9641.00
158_Y358_Q0.9641.00
359_K363_R0.9541.00
360_H363_R0.9491.00
134_Q350_E0.9471.00
149_F152_R0.9471.00
122_S125_R0.9431.00
173_I329_G0.9411.00
126_K133_D0.9411.00
366_K370_K0.9401.00
181_L319_M0.9401.00
98_Q102_E0.9351.00
207_K210_E0.9341.00
150_E153_T0.9331.00
381_R451_R0.9291.00
298_N322_P0.9291.00
157_E160_Y0.9241.00
199_D431_H0.9241.00
158_Y280_E0.9201.00
178_N305_T0.9201.00
226_I239_V0.9201.00
262_L300_V0.9171.00
373_A391_G0.9161.00
271_F299_R0.9151.00
189_F195_I0.9151.00
266_A296_Q0.9121.00
363_R366_K0.9121.00
196_G231_I0.9111.00
109_F450_I0.9091.00
271_F301_I0.9041.00
189_F238_L0.9001.00
284_T369_R0.8951.00
209_F216_I0.8951.00
147_G152_R0.8941.00
155_I172_V0.8901.00
180_I333_T0.8871.00
210_E216_I0.8871.00
387_V400_L0.8861.00
241_V261_L0.8861.00
292_Q302_Y0.8851.00
158_Y163_R0.8811.00
221_V246_Q0.8801.00
180_I337_K0.8791.00
289_P294_L0.8781.00
262_L294_L0.8751.00
255_I287_P0.8751.00
346_L349_A0.8721.00
188_V271_F0.8721.00
105_Q449_D0.8691.00
183_Q336_Y0.8591.00
163_R279_G0.8541.00
123_A350_E0.8541.00
156_A167_C0.8501.00
105_Q419_G0.8501.00
358_Q362_N0.8481.00
372_R392_E0.8461.00
123_A360_H0.8421.00
370_K374_I0.8421.00
156_A168_G0.8401.00
226_I257_R0.8391.00
154_L352_I0.8391.00
262_L272_I0.8341.00
232_K264_W0.8341.00
186_C240_Y0.8321.00
377_E380_Q0.8311.00
231_I239_V0.8291.00
95_P98_Q0.8271.00
185_L329_G0.8261.00
176_A341_S0.8261.00
225_G257_R0.8251.00
316_I340_V0.8231.00
383_L386_H0.8201.00
284_T372_R0.8201.00
162_S280_E0.8171.00
266_A295_D0.8161.00
323_S327_K0.8161.00
383_L454_I0.8151.00
118_Y367_L0.8151.00
363_R367_L0.8141.00
159_L302_Y0.8091.00
414_K418_H0.8071.00
333_T340_V0.8071.00
415_A460_A0.8021.00
375_V440_L0.7991.00
375_V450_I0.7991.00
103_N419_G0.7971.00
255_I293_G0.7971.00
114_V368_Y0.7941.00
402_V438_V0.7931.00
231_I264_W0.7901.00
411_L438_V0.7881.00
286_Q393_N0.7871.00
131_S347_T0.7831.00
413_E417_K0.7831.00
123_A354_N0.7821.00
399_L437_T0.7811.00
115_D371_K0.7791.00
375_V378_A0.7771.00
184_I329_G0.7761.00
262_L291_L0.7751.00
370_K373_A0.7751.00
219_I226_I0.7721.00
186_C238_L0.7711.00
448_S451_R0.7711.00
364_M368_Y0.7701.00
387_V402_V0.7691.00
262_L295_D0.7671.00
372_R391_G0.7661.00
152_R169_P0.7641.00
406_F414_K0.7631.00
456_K459_A0.7631.00
236_P270_S0.7611.00
289_P293_G0.7601.00
359_K362_N0.7571.00
198_E246_Q0.7561.00
301_I319_M0.7541.00
327_K330_H0.7541.00
420_V456_K0.7511.00
406_F410_E0.7501.00
224_E254_T0.7471.00
295_D298_N0.7451.00
194_S234_Q0.7441.00
206_R218_P0.7401.00
159_L318_Y0.7391.00
276_D279_G0.7371.00
199_D429_Y0.7301.00
228_I257_R0.7261.00
223_D390_R0.7241.00
426_S435_T0.7241.00
218_P430_Q0.7221.00
153_T353_K0.7221.00
271_F325_L0.7181.00
246_Q249_L0.7171.00
408_E424_P0.7171.00
360_H364_M0.7151.00
245_H394_S0.7151.00
134_Q139_L0.7131.00
408_E412_I0.7101.00
295_D299_R0.7091.00
122_S133_D0.7081.00
197_Y216_I0.7061.00
371_K447_E0.7061.00
282_R285_G0.7041.00
408_E435_T0.7041.00
197_Y209_F0.7041.00
223_D388_R0.7031.00
408_E436_K0.6991.00
361_I365_R0.6991.00
375_V442_F0.6981.00
179_P204_R0.6931.00
422_I440_L0.6921.00
198_E219_I0.6911.00
452_E459_A0.6891.00
227_C257_R0.6891.00
130_N354_N0.6871.00
180_I184_I0.6851.00
253_M258_R0.6841.00
105_Q452_E0.6771.00
292_Q295_D0.6761.00
148_E342_C0.6761.00
173_I330_H0.6761.00
143_G148_E0.6741.00
373_A376_L0.6741.00
379_V400_L0.6731.00
205_A209_F0.6731.00
118_Y124_W0.6731.00
258_R294_L0.6711.00
186_C212_N0.6631.00
203_P427_L0.6611.00
176_A340_V0.6611.00
123_A126_K0.6601.00
425_V437_T0.6591.00
219_I230_K0.6591.00
185_L303_M0.6591.00
158_Y279_G0.6551.00
455_K458_K0.6541.00
306_F318_Y0.6541.00
195_I214_M0.6511.00
379_V454_I0.6501.00
346_L350_E0.6491.00
420_V453_G0.6491.00
174_I340_V0.6481.00
174_I316_I0.6471.00
444_G449_D0.6471.00
107_I456_K0.6461.00
187_Q332_I0.6451.00
129_V132_L0.6421.00
131_S350_E0.6381.00
231_I261_L0.6361.00
112_G397_R0.6341.00
143_G339_T0.6331.00
173_I321_L0.6311.00
244_S276_D0.6301.00
178_N277_Y0.6291.00
198_E226_I0.6281.00
280_E309_S0.6271.00
143_G342_C0.6261.00
409_K424_P0.6231.00
379_V389_I0.6231.00
94_T97_Q0.6231.00
265_A269_Q0.6221.00
282_R287_P0.6221.00
411_L460_A0.6201.00
354_N358_Q0.6191.00
184_I333_T0.6171.00
125_R128_M0.6161.00
187_Q336_Y0.6151.00
196_G239_V0.6141.00
127_S347_T0.6141.00
383_L387_V0.6131.00
153_T156_A0.6121.00
239_V265_A0.6121.00
374_I450_I0.6111.00
262_L266_A0.6091.00
290_S302_Y0.6071.00
368_Y443_A0.6071.00
283_Y369_R0.6071.00
229_Q232_K0.6051.00
253_M257_R0.6021.00
128_M343_H0.6001.00
109_F440_L0.5981.00
189_F193_I0.5961.00
310_L348_L0.5961.00
241_V253_M0.5941.00
403_Y436_K0.5931.00
322_P325_L0.5911.00
365_R369_R0.5911.00
429_Y434_P0.5901.00
239_V264_W0.5891.00
220_P227_C0.5891.00
181_L317_S0.5881.00
186_C214_M0.5861.00
342_C346_L0.5831.00
355_G358_Q0.5831.00
412_I438_V0.5821.00
258_R291_L0.5801.00
194_S237_N0.5791.00
184_I332_I0.5781.00
106_W419_G0.5771.00
94_T98_Q0.5761.00
99_E104_K0.5761.00
316_I344_S0.5741.00
182_L273_I0.5671.00
253_M261_L0.5661.00
110_H421_K0.5661.00
295_D300_V0.5651.00
107_I452_E0.5651.00
226_I231_I0.5631.00
131_S134_Q0.5621.00
416_K421_K0.5621.00
117_S446_S0.5601.00
105_Q456_K0.5591.00
228_I261_L0.5591.00
324_P327_K0.5581.00
175_G319_M0.5551.00
321_L325_L0.5551.00
119_F122_S0.5541.00
390_R401_D0.5521.00
217_V236_P0.5511.00
388_R403_Y0.5501.00
95_P416_K0.5501.00
197_Y206_R0.5471.00
265_A299_R0.5461.00
279_G304_G0.5461.00
175_G317_S0.5461.00
258_R274_E0.5461.00
291_L294_L0.5451.00
177_G315_R0.5451.00
252_I282_R0.5451.00
167_C171_Q0.5441.00
108_D421_K0.5431.00
123_A127_S0.5431.00
148_E345_Q0.5431.00
281_F365_R0.5411.00
456_K460_A0.5411.00
117_S125_R0.5401.00
369_R372_R0.5401.00
274_E291_L0.5401.00
131_S346_L0.5391.00
265_A268_N0.5391.00
239_V272_I0.5361.00
386_H389_I0.5341.00
97_Q101_E0.5341.00
146_L173_I0.5331.00
379_V383_L0.5331.00
188_V301_I0.5331.00
126_K354_N0.5331.00
407_G426_S0.5321.00
389_I398_I0.5321.00
160_Y164_G0.5321.00
260_Q264_W0.5311.00
201_G206_R0.5291.00
167_C292_Q0.5281.00
103_N106_W0.5271.00
378_A383_L0.5271.00
292_Q300_V0.5261.00
425_V429_Y0.5241.00
187_Q211_A0.5241.00
197_Y218_P0.5221.00
283_Y442_F0.5221.00
245_H282_R0.5211.00
182_L208_I0.5201.00
429_Y437_T0.5181.00
183_Q208_I0.5181.00
423_Y427_L0.5171.00
124_W311_L0.5151.00
211_A332_I0.5141.00
123_A359_K0.5131.00
99_E102_E0.5131.00
406_F411_L0.5131.00
276_D290_S0.5121.00
183_Q212_N0.5101.00
165_V290_S0.5101.00
155_I304_G0.5091.00
108_D111_Y0.5091.00
227_C260_Q0.5081.00
378_A450_I0.5081.00
270_S299_R0.5071.00
97_Q100_A0.5051.00
283_Y368_Y0.5051.00
374_I454_I0.5051.00
199_D430_Q0.5041.00
306_F352_I0.5041.00
238_L271_F0.5031.00
226_I261_L0.5031.00
283_Y372_R0.5011.00
174_I345_Q0.5011.00
244_S258_R0.5001.00
262_L265_A0.5001.00
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  
4tv7A 2 0.9719 100 0.257 Contact Map
3pplA 2 0.8251 100 0.37 Contact Map
3qguA 2 0.8359 100 0.388 Contact Map
3f6tA 2 0.8747 100 0.397 Contact Map
3ez1A 2 0.8035 100 0.408 Contact Map
1vp4A 2 0.8575 100 0.425 Contact Map
2r2nA 2 0.8402 100 0.429 Contact Map
3d6kA 2 0.8099 100 0.431 Contact Map
2x5fA 2 0.8467 100 0.431 Contact Map
3aowA 2 0.8229 100 0.437 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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