GREMLIN Database
YJIR - Uncharacterized HTH-type transcriptional regulator YjiR
UniProt: P39389 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12579
Length: 470 (362)
Sequences: 27366 (18491)
Seq/√Len: 971.9

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_S133_Q3.4251.00
374_R451_S3.2741.00
194_I215_K2.9591.00
373_Q377_A2.9261.00
233_E272_R2.8181.00
160_L165_V2.7461.00
422_M463_E2.6361.00
260_D264_R2.6291.00
378_L455_R2.5451.00
392_C405_E2.5241.00
189_C214_V2.4131.00
456_E460_Q2.3231.00
174_T180_S2.2861.00
418_Q421_R2.2441.00
193_D242_K2.2211.00
154_Q357_L2.1921.00
150_V353_A2.1541.00
182_S186_M2.0591.00
161_D362_H2.0211.00
382_W458_L2.0201.00
148_Q350_M2.0021.00
156_A168_A1.9971.00
382_W459_K1.9711.00
120_S126_R1.9401.00
222_D262_R1.9331.00
325_A330_H1.9221.00
378_L451_S1.9071.00
456_E459_K1.9001.00
270_A277_I1.8991.00
274_D304_R1.8771.00
149_R153_E1.8761.00
381_C385_E1.8641.00
130_R354_T1.8531.00
231_A235_A1.8461.00
157_R357_L1.8211.00
418_Q464_A1.8201.00
411_D414_C1.8181.00
184_A306_L1.8151.00
380_T395_R1.8121.00
226_G262_R1.8011.00
271_Q302_D1.8001.00
380_T384_R1.7931.00
264_R268_S1.7811.00
229_V265_A1.7641.00
199_S218_E1.7611.00
109_L457_A1.7531.00
259_P262_R1.7241.00
194_I217_I1.7061.00
231_A234_L1.6851.00
170_D327_G1.6751.00
382_W455_R1.6731.00
154_Q157_R1.6651.00
126_R130_R1.6631.00
278_F308_C1.6571.00
233_E265_A1.6551.00
260_D294_R1.6531.00
220_P231_A1.6521.00
153_E168_A1.6321.00
146_A334_M1.6321.00
384_R393_I1.6321.00
265_A268_S1.6291.00
311_F352_A1.6001.00
268_S272_R1.5941.00
371_I451_S1.5891.00
422_M460_Q1.5851.00
379_Y458_L1.5851.00
426_V442_L1.5761.00
378_L382_W1.5741.00
243_G278_F1.5681.00
153_E157_R1.5641.00
382_W385_E1.5641.00
130_R134_H1.5501.00
228_S231_A1.5491.00
382_W462_G1.5431.00
236_L269_L1.5391.00
230_E265_A1.5351.00
359_G363_R1.5351.00
194_I240_P1.5291.00
379_Y402_L1.5241.00
371_I374_R1.5151.00
125_W129_S1.5091.00
146_A152_R1.5091.00
412_M430_S1.5041.00
209_L214_V1.5001.00
386_Y459_K1.4971.00
128_L351_A1.4961.00
150_V357_L1.4911.00
345_V348_T1.4861.00
282_V310_S1.4851.00
199_S220_P1.4811.00
191_P213_G1.4501.00
380_T393_I1.4471.00
321_V352_A1.4381.00
384_R395_R1.4301.00
380_T402_L1.4251.00
104_S423_K1.4191.00
382_W386_Y1.4171.00
120_S123_P1.4161.00
229_V269_L1.4151.00
128_L132_V1.4141.00
157_R161_D1.4101.00
268_S271_Q1.4081.00
270_A275_I1.4071.00
233_E237_E1.4061.00
324_V333_L1.4041.00
185_L209_L1.3971.00
353_A357_L1.3961.00
449_P453_T1.3911.00
354_T358_E1.3901.00
177_C308_C1.3891.00
386_Y462_G1.3891.00
405_E441_C1.3841.00
377_A381_C1.3811.00
233_E273_H1.3801.00
261_A264_R1.3761.00
414_C418_Q1.3681.00
414_C417_R1.3641.00
196_A241_I1.3551.00
289_E397_K1.3511.00
385_E462_G1.3361.00
127_E354_T1.3331.00
236_L275_I1.3311.00
196_A219_I1.3181.00
154_Q353_A1.3061.00
451_S455_R1.2961.00
149_R168_A1.2881.00
269_L275_I1.2841.00
366_R370_Q1.2721.00
403_W429_G1.2601.00
195_V243_G1.2521.00
459_K463_E1.2481.00
419_L461_I1.2451.00
155_I323_W1.2391.00
126_R129_S1.2381.00
234_L238_Q1.2361.00
337_K341_S1.2321.00
264_R299_W1.2241.00
262_R265_A1.2151.00
354_T357_L1.2131.00
190_K193_D1.2111.00
455_R459_K1.2101.00
195_V209_L1.2071.00
206_M210_R1.2071.00
127_E130_R1.2041.00
152_R156_A1.2011.00
366_R369_R1.2011.00
184_A278_F1.1921.00
169_D327_G1.1911.00
260_D299_W1.1881.00
269_L273_H1.1871.00
371_I375_N1.1861.00
185_L189_C1.1821.00
453_T456_E1.1801.00
413_V430_S1.1791.00
309_S323_W1.1691.00
261_A265_A1.1691.00
150_V350_M1.1681.00
194_I241_I1.1511.00
237_E273_H1.1461.00
370_Q373_Q1.1441.00
158_L162_S1.1411.00
186_M212_M1.1351.00
188_V243_G1.1331.00
332_K335_H1.1261.00
416_A426_V1.1181.00
277_I296_I1.1171.00
376_L380_T1.1131.00
175_S179_N1.1121.00
155_I173_I1.1121.00
449_P452_E1.1081.00
172_I330_H1.1061.00
139_V350_M1.1061.00
376_L446_C1.1021.00
244_I275_I1.0961.00
127_E131_V1.0931.00
167_T327_G1.0911.00
381_C455_R1.0911.00
156_A171_I1.0821.00
295_T298_S1.0581.00
331_D335_H1.0461.00
125_W133_Q1.0411.00
405_E440_N1.0401.00
151_L173_I1.0391.00
363_R367_R1.0361.00
148_Q353_A1.0321.00
271_Q304_R1.0241.00
424_I461_I1.0211.00
130_R133_Q1.0201.00
187_A336_M1.0151.00
287_A293_P1.0141.00
189_C195_V1.0131.00
378_L381_C1.0101.00
422_M464_A1.0081.00
157_R160_L1.0081.00
170_D330_H1.0041.00
167_T170_D0.9971.00
162_S285_E0.9971.00
407_P440_N0.9961.00
296_I305_V0.9951.00
224_E262_R0.9911.00
392_C407_P0.9861.00
158_L362_H0.9851.00
149_R152_R0.9851.00
377_A395_R0.9821.00
370_Q374_R0.9821.00
205_S245_I0.9801.00
125_W132_V0.9771.00
187_A333_L0.9741.00
179_N337_K0.9721.00
330_H334_M0.9691.00
134_H354_T0.9671.00
419_L426_V0.9661.00
386_Y458_L0.9641.00
196_A235_A0.9631.00
209_L216_V0.9631.00
194_I237_E0.9621.00
164_S297_H0.9611.00
172_I333_L0.9541.00
179_N341_S0.9531.00
230_E234_L0.9501.00
297_H307_L0.9471.00
314_S361_Y0.9471.00
199_S435_S0.9371.00
96_D99_E0.9361.00
404_I444_I0.9331.00
303_G326_P0.9321.00
415_V442_L0.9281.00
158_L285_E0.9271.00
306_L325_A0.9261.00
105_S423_K0.9251.00
413_V417_R0.9231.00
150_V153_E0.9221.00
226_G259_P0.9211.00
271_Q303_G0.9191.00
412_M440_N0.9191.00
246_L266_V0.9171.00
219_I235_A0.9171.00
126_R133_Q0.9151.00
222_D231_A0.9051.00
196_A232_L0.9041.00
237_E241_I0.9021.00
180_S308_C0.8991.00
306_L329_Y0.8981.00
147_G152_R0.8941.00
391_I406_L0.8941.00
177_C310_S0.8911.00
185_L245_I0.8911.00
267_L305_V0.8891.00
222_D228_S0.8871.00
367_R370_Q0.8841.00
385_E455_R0.8831.00
416_A428_A0.8811.00
155_I171_I0.8781.00
276_V306_L0.8771.00
276_V304_R0.8761.00
184_A333_L0.8731.00
189_C243_G0.8671.00
123_P354_T0.8661.00
109_L454_Y0.8651.00
210_R216_V0.8641.00
364_H367_R0.8631.00
362_H366_R0.8601.00
418_Q422_M0.8601.00
207_Q210_R0.8591.00
227_I244_I0.8581.00
154_Q356_V0.8571.00
233_E269_L0.8571.00
271_Q301_I0.8561.00
376_L396_P0.8551.00
227_I262_R0.8551.00
327_G331_D0.8491.00
114_P372_Y0.8451.00
367_R371_I0.8441.00
337_K344_N0.8361.00
221_T251_N0.8351.00
260_D292_R0.8271.00
159_M323_W0.8231.00
93_Q96_D0.8211.00
105_S453_T0.8181.00
391_I404_I0.8181.00
103_D423_K0.8171.00
420_C425_Q0.8161.00
219_I227_I0.8161.00
381_C384_R0.8161.00
232_L269_L0.8151.00
232_L244_I0.8131.00
325_A333_L0.8041.00
267_L299_W0.8031.00
198_E251_N0.8031.00
159_M307_L0.8031.00
91_W97_M0.8011.00
185_L243_G0.8001.00
91_W95_L0.7991.00
424_I460_Q0.7941.00
294_R299_W0.7941.00
115_D375_N0.7941.00
267_L277_I0.7921.00
379_Y454_Y0.7891.00
156_A167_T0.7881.00
183_L333_L0.7861.00
229_V262_R0.7851.00
350_M353_A0.7821.00
271_Q300_D0.7811.00
289_E376_L0.7801.00
241_I275_I0.7781.00
188_V276_V0.7751.00
412_M428_A0.7751.00
118_A124_L0.7741.00
260_D298_S0.7741.00
452_E455_R0.7721.00
175_S345_V0.7711.00
287_A290_Y0.7701.00
321_V344_N0.7691.00
123_P358_E0.7691.00
236_L273_H0.7691.00
460_Q463_E0.7621.00
123_P364_H0.7601.00
92_D95_L0.7591.00
197_V216_V0.7571.00
374_R378_L0.7551.00
118_A371_I0.7541.00
376_L395_R0.7531.00
300_D303_G0.7531.00
291_P397_K0.7521.00
197_V209_L0.7521.00
379_Y382_W0.7521.00
375_N451_S0.7501.00
93_Q97_M0.7501.00
230_E233_E0.7491.00
206_M218_E0.7481.00
156_A166_V0.7481.00
363_R366_R0.7481.00
158_L284_G0.7481.00
182_S340_I0.7451.00
368_M372_Y0.7451.00
289_E373_Q0.7451.00
419_L464_A0.7441.00
374_R377_A0.7421.00
153_E357_L0.7421.00
308_C324_V0.7401.00
131_V351_A0.7381.00
198_E227_I0.7371.00
198_E219_I0.7361.00
294_R298_S0.7321.00
95_L99_E0.7301.00
91_W94_V0.7291.00
281_D284_G0.7291.00
410_V418_Q0.7241.00
123_P126_R0.7231.00
105_S456_E0.7221.00
199_S433_S0.7211.00
258_M263_K0.7191.00
297_H300_D0.7191.00
365_I369_R0.7191.00
300_D304_R0.7151.00
386_Y390_E0.7141.00
224_E259_P0.7131.00
227_I232_L0.7121.00
403_W441_C0.7091.00
415_V419_L0.7081.00
379_Y444_I0.7051.00
152_R168_A0.7051.00
178_H204_G0.7051.00
267_L296_I0.7031.00
94_V97_M0.7001.00
250_C398_G0.6981.00
448_L453_T0.6971.00
331_D334_M0.6961.00
205_S209_L0.6951.00
311_F323_W0.6931.00
130_R358_E0.6911.00
406_L442_L0.6911.00
172_I334_M0.6901.00
364_H368_M0.6891.00
228_S262_R0.6881.00
175_S344_N0.6811.00
267_L271_Q0.6721.00
185_L212_M0.6721.00
196_A244_I0.6711.00
251_N254_L0.6691.00
218_E434_A0.6681.00
267_L300_D0.6671.00
148_Q346_P0.6661.00
120_S125_W0.6631.00
415_V464_A0.6631.00
177_C282_V0.6601.00
95_L98_L0.6581.00
360_H363_R0.6581.00
232_L266_V0.6571.00
379_Y446_C0.6571.00
143_D148_Q0.6551.00
237_E272_R0.6551.00
143_D346_P0.6541.00
429_G441_C0.6511.00
173_I321_V0.6501.00
107_V460_Q0.6481.00
166_V170_D0.6471.00
134_H139_V0.6451.00
393_I402_L0.6441.00
179_N183_L0.6441.00
383_I393_I0.6421.00
276_V329_Y0.6421.00
270_A274_D0.6391.00
459_K462_G0.6371.00
424_I457_A0.6371.00
383_I404_I0.6371.00
220_P228_S0.6361.00
249_N281_D0.6291.00
153_E156_A0.6281.00
244_I269_L0.6271.00
195_V214_V0.6271.00
109_L444_I0.6261.00
219_I231_A0.6261.00
426_V444_I0.6251.00
358_E362_H0.6251.00
346_P350_M0.6231.00
456_E463_E0.6231.00
417_R421_R0.6211.00
288_T373_Q0.6211.00
112_S401_L0.6211.00
412_M416_A0.6201.00
143_D343_F0.6201.00
416_A442_L0.6151.00
410_V415_V0.6141.00
263_K299_W0.6141.00
125_W128_L0.6131.00
131_V354_T0.6131.00
321_V348_T0.6121.00
92_D97_M0.6121.00
183_L336_M0.6111.00
184_A308_C0.6091.00
288_T446_C0.6081.00
377_A380_T0.6081.00
350_M354_T0.6081.00
378_L454_Y0.6061.00
244_I270_A0.6051.00
185_L214_V0.6051.00
235_A238_Q0.6011.00
197_V206_M0.6001.00
189_C193_D0.6001.00
326_P329_Y0.6001.00
284_G309_S0.6001.00
203_Y431_I0.5981.00
176_G320_R0.5951.00
192_G215_K0.5951.00
383_I458_L0.5941.00
123_P360_H0.5941.00
413_V428_A0.5931.00
166_V297_H0.5931.00
315_I352_A0.5921.00
217_I235_A0.5921.00
127_E351_A0.5911.00
223_P392_C0.5911.00
183_L337_K0.5911.00
186_M336_M0.5891.00
129_S132_V0.5891.00
328_R331_D0.5891.00
180_S322_G0.5861.00
460_Q464_A0.5851.00
173_I344_N0.5841.00
229_V233_E0.5821.00
285_E314_S0.5811.00
182_S212_M0.5811.00
258_M266_V0.5761.00
390_E407_P0.5741.00
131_V134_H0.5731.00
270_A304_R0.5721.00
236_L241_I0.5721.00
417_R420_C0.5711.00
267_L302_D0.5701.00
372_Y447_A0.5661.00
117_E125_W0.5661.00
151_L155_I0.5661.00
281_D295_T0.5661.00
172_I325_A0.5651.00
295_T307_L0.5641.00
162_S362_H0.5621.00
108_P425_Q0.5621.00
286_L369_R0.5571.00
287_A292_R0.5571.00
410_V414_C0.5571.00
186_M340_I0.5531.00
107_V456_E0.5531.00
123_P127_E0.5521.00
229_V266_V0.5521.00
359_G362_H0.5501.00
123_P363_R0.5501.00
110_S425_Q0.5491.00
283_Y401_L0.5481.00
223_P394_T0.5481.00
244_I277_I0.5461.00
258_M262_R0.5451.00
263_K296_I0.5441.00
279_E296_I0.5411.00
246_L258_M0.5411.00
119_P124_L0.5401.00
181_M208_M0.5401.00
429_G433_S0.5401.00
193_D240_P0.5391.00
190_K242_K0.5381.00
94_V98_L0.5361.00
182_S208_M0.5361.00
128_L347_S0.5351.00
275_I304_R0.5341.00
188_V306_L0.5331.00
152_R169_D0.5331.00
173_I349_Q0.5321.00
189_C242_K0.5301.00
369_R373_Q0.5281.00
288_T376_L0.5261.00
270_A273_H0.5261.00
142_Y313_K0.5261.00
217_I241_I0.5251.00
257_I287_A0.5251.00
416_A420_C0.5251.00
155_I309_S0.5241.00
201_C206_M0.5241.00
106_I423_K0.5221.00
433_S441_C0.5211.00
362_H365_I0.5201.00
103_D106_I0.5201.00
296_I299_W0.5191.00
236_L270_A0.5181.00
160_L163_G0.5171.00
234_L237_E0.5171.00
348_T351_A0.5171.00
328_R332_K0.5171.00
299_W302_D0.5171.00
131_V350_M0.5161.00
184_A188_V0.5151.00
383_I391_I0.5151.00
250_C287_A0.5141.00
382_W454_Y0.5101.00
378_L458_L0.5091.00
386_Y455_R0.5081.00
437_K440_N0.5081.00
181_M278_F0.5071.00
151_L353_A0.5061.00
148_Q349_Q0.5061.00
160_L164_S0.5051.00
194_I242_K0.5051.00
243_G276_V0.5011.00
300_D305_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  
4tv7A 2 0.9447 100 0.299 Contact Map
3pplA 2 0.8277 100 0.382 Contact Map
3f6tA 2 0.9021 100 0.398 Contact Map
3qguA 2 0.8234 100 0.411 Contact Map
3ez1A 2 0.8064 100 0.425 Contact Map
2r2nA 2 0.8362 100 0.43 Contact Map
2x5fA 2 0.8489 100 0.431 Contact Map
1vp4A 2 0.8574 100 0.432 Contact Map
4je5A 2 0.8489 100 0.433 Contact Map
3aowA 2 0.8426 100 0.435 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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