GREMLIN Database
YPDA - Sensor histidine kinase YpdA
UniProt: P0AA93 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG14148
Length: 565 (460)
Sequences: 4312 (3985)
Seq/√Len: 185.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
494_R545_E4.2901.00
523_V535_L4.0361.00
491_I548_F3.8361.00
539_R542_P3.6351.00
524_H528_K3.5591.00
354_E358_K3.3951.00
505_I537_I3.2891.00
526_R530_L3.2721.00
527_V548_F3.2601.00
536_H547_A3.2041.00
495_D499_G3.1741.00
481_S492_A3.0961.00
490_R549_Y3.0531.00
456_L527_V3.0391.00
537_I546_I2.9891.00
359_A362_R2.8371.00
353_R356_A2.7851.00
477_V496_T2.6861.00
456_L526_R2.6471.00
364_L367_K2.6411.00
384_I387_N2.6411.00
492_A547_A2.6191.00
371_H376_A2.6011.00
488_R549_Y2.5591.00
354_E361_L2.5461.00
358_K362_R2.4691.00
372_F376_A2.4531.00
387_N390_T2.4291.00
476_G496_T2.4291.00
356_A360_E2.4281.00
527_V532_G2.4011.00
353_R357_N2.3641.00
462_E466_V2.3331.00
483_A492_A2.2891.00
443_D481_S2.2881.00
357_N360_E2.2591.00
489_V552_N2.2591.00
481_S494_R2.2411.00
501_D504_V2.2161.00
492_A545_E2.1341.00
371_H375_N2.0911.00
347_S350_E2.0831.00
472_C496_T2.0821.00
383_S386_L2.0651.00
484_E552_N2.0521.00
485_C490_R2.0431.00
538_R545_E1.9951.00
456_L523_V1.9831.00
369_N375_N1.9411.00
369_N376_A1.9321.00
533_E536_H1.9311.00
203_A206_A1.9241.00
439_T477_V1.9201.00
357_N362_R1.9201.00
355_M358_K1.8941.00
538_R547_A1.8571.00
357_N361_L1.8471.00
457_I491_I1.8281.00
441_I479_T1.8031.00
360_E363_A1.7931.00
483_A490_R1.7751.00
353_R358_K1.7651.00
358_K361_L1.7531.00
369_N372_F1.7451.00
415_D418_K1.7341.00
362_R365_Q1.7161.00
339_I342_T1.7151.00
490_R547_A1.7051.00
180_G188_V1.6931.00
452_I455_L1.6841.00
180_G187_I1.6491.00
375_N379_A1.6371.00
500_I508_V1.6371.00
387_N391_A1.6341.00
364_L369_N1.6231.00
231_V235_I1.6111.00
325_I329_L1.6041.00
422_Q426_Y1.6031.00
333_A339_I1.5951.00
356_A362_R1.5711.00
518_I522_N1.5711.00
388_P391_A1.5611.00
359_A371_H1.5581.00
502_P505_I1.5571.00
479_T494_R1.5331.00
365_Q369_N1.5321.00
354_E357_N1.5091.00
210_L213_A1.5041.00
122_G126_G1.5001.00
342_T346_V1.5001.00
336_L340_I1.4991.00
349_A352_L1.4991.00
338_Q343_Q1.4901.00
206_A209_A1.4871.00
275_R279_N1.4771.00
441_I477_V1.4711.00
419_E422_Q1.4641.00
509_E535_L1.4621.00
339_I343_Q1.4611.00
500_I504_V1.4611.00
194_V197_E1.4451.00
363_A367_K1.4411.00
339_I344_L1.4411.00
375_N382_S1.4381.00
188_V191_V1.4291.00
383_S387_N1.4231.00
228_L232_C1.4171.00
500_I544_T1.4101.00
457_I461_V1.4091.00
509_E546_I1.4021.00
397_N452_I1.3991.00
421_Y425_D1.3981.00
353_R359_A1.3951.00
359_A364_L1.3911.00
375_N378_N1.3791.00
357_N365_Q1.3761.00
369_N374_F1.3731.00
527_V550_I1.3731.00
371_H374_F1.3511.00
340_I344_L1.3511.00
364_L376_A1.3471.00
329_L333_A1.3441.00
125_S130_L1.3411.00
340_I343_Q1.3381.00
379_A382_S1.3331.00
208_L211_D1.3331.00
456_L548_F1.3211.00
472_C476_G1.3201.00
374_F382_S1.3151.00
364_L371_H1.3151.00
485_C549_Y1.3111.00
362_R367_K1.3111.00
326_T329_L1.3101.00
333_A336_L1.3071.00
360_E365_Q1.3021.00
183_C187_I1.2851.00
501_D540_L1.2761.00
346_V349_A1.2731.00
122_G127_W1.2661.00
206_A210_L1.2631.00
356_A361_L1.2631.00
313_G316_K1.2611.00
504_V507_R1.2551.00
533_E549_Y1.2531.00
117_T123_C1.2521.00
537_I544_T1.2381.00
209_A213_A1.2381.00
276_Q280_Y1.2311.00
443_D479_T1.2301.00
342_T345_E1.2151.00
412_E450_C1.2131.00
467_H513_M1.2121.00
498_H513_M1.2111.00
217_L220_F1.2061.00
173_I176_P1.1961.00
149_E153_M1.1901.00
353_R361_L1.1881.00
180_G183_C1.1881.00
528_K533_E1.1801.00
482_V489_V1.1781.00
226_E232_C1.1771.00
187_I190_L1.1711.00
372_F375_N1.1661.00
127_W131_K1.1571.00
94_G98_G1.1561.00
426_Y429_I1.1561.00
473_K496_T1.1521.00
467_H512_E1.1511.00
376_A379_A1.1481.00
373_L394_L1.1441.00
285_I288_N1.1381.00
532_G551_P1.1351.00
256_V259_G1.1351.00
353_R360_E1.1331.00
343_Q346_V1.1311.00
96_I99_I1.1301.00
339_I346_V1.1301.00
227_S231_V1.1281.00
180_G186_F1.1161.00
300_M304_P1.1151.00
98_G102_Y1.1141.00
347_S351_Q1.1101.00
187_I191_V1.1061.00
354_E362_R1.1011.00
460_L546_I1.0991.00
94_G97_A1.0991.00
173_I177_M1.0881.00
378_N382_S1.0841.00
197_E201_S1.0841.00
141_G145_G1.0781.00
117_T122_G1.0781.00
233_E237_D1.0771.00
350_E353_R1.0721.00
110_T114_C1.0721.00
355_M361_L1.0711.00
371_H378_N1.0691.00
145_G149_E1.0631.00
358_K365_Q1.0631.00
490_R536_H1.0571.00
195_E198_K1.0531.00
426_Y430_E1.0521.00
509_E537_I1.0431.00
185_G188_V1.0431.00
536_H548_F1.0411.00
500_I505_I1.0411.00
495_D543_G1.0351.00
276_Q285_I1.0341.00
188_V192_Q1.0341.00
416_I489_V1.0341.00
122_G130_L1.0231.00
344_L347_S1.0191.00
271_S274_T1.0191.00
126_G130_L1.0161.00
361_L364_L1.0161.00
532_G550_I1.0131.00
392_R396_F1.0070.99
141_G149_E0.9970.99
207_K214_N0.9960.99
153_M156_V0.9940.99
213_A216_T0.9930.99
199_E202_A0.9900.99
341_S344_L0.9900.99
355_M362_R0.9900.99
355_M359_A0.9900.99
373_L376_A0.9870.99
97_A100_H0.9860.99
125_S131_K0.9830.99
172_K177_M0.9810.99
338_Q342_T0.9800.99
120_L125_S0.9770.99
193_S197_E0.9770.99
351_Q358_K0.9740.99
508_V537_I0.9730.99
114_C117_T0.9730.99
180_G185_G0.9720.99
150_T154_I0.9690.99
420_L423_I0.9680.99
181_S188_V0.9670.99
197_E200_A0.9640.99
164_A168_D0.9600.99
527_V535_L0.9590.99
358_K364_L0.9570.99
453_P530_L0.9560.99
482_V491_I0.9540.99
93_T97_A0.9520.99
382_S386_L0.9500.99
139_R143_L0.9490.99
90_G94_G0.9470.99
209_A214_N0.9470.99
198_K202_A0.9430.99
359_A372_F0.9350.99
401_Y521_L0.9350.99
449_N452_I0.9340.99
180_G191_V0.9340.99
351_Q354_E0.9320.99
399_S402_L0.9320.99
137_R141_G0.9310.99
94_G100_H0.9300.99
117_T125_S0.9290.99
125_S129_N0.9280.99
214_N218_P0.9260.99
467_H511_N0.9240.99
327_S330_Q0.9240.99
117_T121_A0.9230.99
140_V144_G0.9180.99
352_L356_A0.9150.99
353_R364_L0.9120.99
351_Q357_N0.9120.99
276_Q284_I0.9080.99
444_I482_V0.9080.99
418_K421_Y0.9070.99
335_G340_I0.9040.99
153_M157_I0.9010.99
460_L548_F0.9010.99
229_R232_C0.9000.99
414_I453_P0.8990.99
360_E367_K0.8950.99
354_E359_A0.8950.99
97_A101_R0.8930.99
329_L337_S0.8910.99
152_T156_V0.8900.99
360_E364_L0.8900.99
119_I125_S0.8900.99
272_P276_Q0.8890.99
217_L221_R0.8890.99
196_G199_E0.8880.99
115_F118_S0.8870.99
212_I216_T0.8860.99
205_Q208_L0.8830.99
431_Q434_F0.8820.99
149_E157_I0.8820.99
130_L134_K0.8810.99
228_L235_I0.8800.99
257_G260_E0.8800.99
216_T221_R0.8790.99
126_G129_N0.8780.99
452_I467_H0.8770.99
94_G102_Y0.8770.99
180_G184_I0.8750.99
119_I122_G0.8720.99
122_G125_S0.8720.99
355_M363_A0.8690.98
368_I372_F0.8690.98
96_I100_H0.8670.98
144_G147_L0.8640.98
499_G543_G0.8630.98
335_G346_V0.8620.98
307_E310_V0.8580.98
420_L424_K0.8560.98
341_S345_E0.8560.98
359_A363_A0.8550.98
416_I491_I0.8540.98
348_R351_Q0.8530.98
452_I526_R0.8520.98
232_C238_D0.8510.98
168_D177_M0.8500.98
429_I433_R0.8500.98
174_G178_I0.8480.98
206_A221_R0.8480.98
171_S174_G0.8450.98
140_V143_L0.8440.98
380_I383_S0.8430.98
369_N382_S0.8410.98
462_E467_H0.8390.98
400_R404_Y0.8380.98
357_N364_L0.8360.98
111_A114_C0.8360.98
236_R239_I0.8350.98
254_A257_G0.8350.98
354_E365_Q0.8340.98
333_A337_S0.8320.98
207_K211_D0.8320.98
361_L367_K0.8300.98
336_L339_I0.8280.98
428_A431_Q0.8270.98
356_A359_A0.8220.98
119_I123_C0.8210.98
89_V97_A0.8190.98
152_T157_I0.8190.98
455_L522_N0.8160.98
361_L365_Q0.8160.98
325_I333_A0.8140.98
218_P221_R0.8140.98
149_E156_V0.8110.98
212_I215_K0.8100.98
226_E229_R0.8100.98
346_V350_E0.8080.98
488_R533_E0.8080.98
205_Q209_A0.8070.98
199_E203_A0.8060.98
167_I171_S0.8050.97
121_A125_S0.8050.97
403_R516_N0.8040.97
241_A245_A0.8040.97
500_I546_I0.8030.97
337_S343_Q0.8020.97
143_L150_T0.8010.97
92_I97_A0.8000.97
109_V114_C0.7990.97
357_N371_H0.7960.97
355_M360_E0.7950.97
143_L153_M0.7950.97
329_L339_I0.7910.97
276_Q279_N0.7900.97
74_R101_R0.7900.97
368_I375_N0.7900.97
259_G263_Y0.7890.97
461_V480_I0.7880.97
330_Q334_V0.7870.97
160_A163_T0.7870.97
196_G200_A0.7840.97
428_A432_A0.7830.97
257_G265_N0.7820.97
206_A213_A0.7820.97
417_K482_V0.7770.97
120_L126_G0.7760.97
403_R512_E0.7760.97
400_R407_E0.7740.97
227_S232_C0.7710.97
324_Q327_S0.7700.97
110_T115_F0.7680.97
359_A376_A0.7680.97
382_S455_L0.7670.97
374_F379_A0.7660.97
141_G144_G0.7640.97
95_V100_H0.7640.97
90_G101_R0.7630.97
123_C131_K0.7610.96
285_I289_D0.7610.96
119_I127_W0.7600.96
120_L127_W0.7600.96
352_L357_N0.7580.96
115_F119_I0.7580.96
169_I172_K0.7560.96
99_I102_Y0.7550.96
95_V99_I0.7550.96
169_I173_I0.7540.96
96_I103_L0.7530.96
358_K363_A0.7530.96
374_F380_I0.7520.96
508_V546_I0.7500.96
369_N379_A0.7460.96
114_C121_A0.7450.96
209_A212_I0.7450.96
89_V96_I0.7440.96
422_Q425_D0.7430.96
377_L395_I0.7420.96
335_G339_I0.7410.96
86_G97_A0.7410.96
166_G177_M0.7390.96
350_E357_N0.7370.96
335_G338_Q0.7350.96
118_S123_C0.7330.96
338_Q341_S0.7320.96
215_K219_L0.7310.96
352_L355_M0.7300.96
420_L426_Y0.7290.96
284_I290_E0.7280.95
423_I426_Y0.7280.95
168_D171_S0.7270.95
163_T167_I0.7270.95
145_G155_L0.7260.95
423_I461_V0.7260.95
375_N467_H0.7230.95
211_D215_K0.7210.95
525_H528_K0.7160.95
183_C188_V0.7160.95
371_H379_A0.7150.95
302_V316_K0.7130.95
455_L526_R0.7080.95
171_S177_M0.7070.95
213_A217_L0.7060.95
452_I530_L0.7050.95
114_C125_S0.7050.95
117_T130_L0.7040.95
203_A209_A0.7020.94
270_I273_T0.7010.94
364_L372_F0.7000.94
207_K210_L0.6980.94
372_F455_L0.6980.94
149_E152_T0.6970.94
392_R405_N0.6960.94
323_H327_S0.6960.94
183_C189_L0.6950.94
404_Y407_E0.6920.94
251_H257_G0.6900.94
498_H544_T0.6890.94
114_C122_G0.6890.94
467_H522_N0.6890.94
212_I220_F0.6860.94
198_K201_S0.6830.94
234_I238_D0.6820.94
353_R362_R0.6820.94
360_E372_F0.6810.94
117_T126_G0.6800.94
203_A214_N0.6800.94
95_V102_Y0.6780.93
118_S121_A0.6780.93
454_S458_Q0.6770.93
144_G157_I0.6770.93
372_F394_L0.6750.93
329_L335_G0.6730.93
333_A343_Q0.6710.93
335_G343_Q0.6700.93
174_G177_M0.6670.93
374_F378_N0.6670.93
124_I129_N0.6650.93
521_L525_H0.6650.93
257_G262_N0.6630.93
144_G152_T0.6600.92
330_Q333_A0.6600.92
95_V98_G0.6600.92
173_I178_I0.6590.92
460_L523_V0.6560.92
381_S384_I0.6550.92
398_L405_N0.6540.92
500_I537_I0.6510.92
74_R86_G0.6500.92
421_Y424_K0.6500.92
304_P311_V0.6490.92
122_G134_K0.6480.92
90_G97_A0.6480.92
329_L336_L0.6480.92
453_P457_I0.6470.92
358_K366_S0.6450.92
106_I110_T0.6440.92
356_A363_A0.6440.92
118_S122_G0.6430.91
445_D482_V0.6430.91
353_R363_A0.6420.91
164_A172_K0.6420.91
243_A247_T0.6400.91
116_I119_I0.6390.91
418_K422_Q0.6370.91
536_H549_Y0.6370.91
111_A115_F0.6360.91
229_R233_E0.6350.91
399_S403_R0.6330.91
404_Y467_H0.6320.91
271_S275_R0.6310.91
204_R207_K0.6300.91
143_L157_I0.6300.91
205_Q213_A0.6290.91
96_I102_Y0.6290.91
277_A285_I0.6280.91
114_C120_L0.6280.91
331_E335_G0.6270.90
455_L458_Q0.6250.90
177_M180_G0.6240.90
144_G156_V0.6240.90
397_N522_N0.6230.90
89_V101_R0.6220.90
210_L214_N0.6220.90
372_F380_I0.6220.90
337_S344_L0.6210.90
86_G89_V0.6210.90
86_G90_G0.6190.90
401_Y516_N0.6180.90
114_C118_S0.6170.90
185_G190_L0.6170.90
151_L155_L0.6160.90
203_A207_K0.6160.90
359_A367_K0.6140.90
120_L123_C0.6140.90
182_V186_F0.6140.90
467_H496_T0.6110.89
113_P117_T0.6100.89
357_N363_A0.6100.89
333_A340_I0.6100.89
367_K372_F0.6090.89
348_R352_L0.6090.89
458_Q523_V0.6080.89
117_T129_N0.6050.89
548_F551_P0.6050.89
395_I455_L0.6040.89
214_N217_L0.6040.89
146_M150_T0.6040.89
94_G101_R0.6040.89
142_I156_V0.6040.89
351_Q355_M0.6020.89
92_I95_V0.6020.89
138_W142_I0.6020.89
208_L212_I0.6010.89
299_S303_I0.6010.89
402_L406_I0.6010.89
359_A366_S0.6000.88
255_Y262_N0.6000.88
455_L530_L0.5990.88
460_L493_V0.5980.88
375_N380_I0.5980.88
129_N134_K0.5980.88
227_S236_R0.5980.88
350_E354_E0.5970.88
420_L491_I0.5970.88
524_H535_L0.5960.88
371_H377_L0.5960.88
90_G96_I0.5960.88
284_I288_N0.5950.88
376_A382_S0.5940.88
283_I287_N0.5940.88
369_N373_L0.5910.88
277_A284_I0.5900.88
329_L342_T0.5880.87
123_C130_L0.5880.87
206_A214_N0.5870.87
235_I239_I0.5860.87
251_H254_A0.5860.87
277_A280_Y0.5860.87
248_N252_V0.5830.87
364_L374_F0.5830.87
114_C123_C0.5830.87
403_R406_I0.5830.87
130_L133_P0.5830.87
111_A117_T0.5820.87
254_A263_Y0.5820.87
97_A103_L0.5820.87
118_S126_G0.5800.87
424_K431_Q0.5790.87
107_G111_A0.5790.87
206_A216_T0.5780.87
356_A367_K0.5780.87
330_Q337_S0.5780.87
183_C186_F0.5740.86
405_N511_N0.5740.86
172_K175_I0.5740.86
117_T120_L0.5740.86
479_T496_T0.5710.86
372_F522_N0.5700.86
235_I241_A0.5700.86
371_H382_S0.5690.86
274_T285_I0.5690.86
355_M364_L0.5690.86
276_Q290_E0.5690.86
169_I174_G0.5680.86
372_F382_S0.5680.86
209_A215_K0.5640.85
203_A216_T0.5640.85
94_G99_I0.5630.85
172_K176_P0.5630.85
204_R210_L0.5600.85
273_T277_A0.5600.85
461_V465_I0.5590.85
430_E433_R0.5570.85
148_C153_M0.5570.85
219_L222_H0.5560.84
419_E423_I0.5550.84
148_C151_L0.5540.84
141_G152_T0.5530.84
352_L362_R0.5530.84
185_G189_L0.5530.84
274_T287_N0.5520.84
394_L402_L0.5520.84
86_G93_T0.5510.84
511_N525_H0.5500.84
455_L523_V0.5500.84
93_T96_I0.5490.84
308_K311_V0.5490.84
143_L147_L0.5490.84
311_V314_T0.5480.84
276_Q288_N0.5480.84
368_I371_H0.5480.84
184_I191_V0.5460.83
122_G129_N0.5450.83
379_A383_S0.5450.83
140_V147_L0.5440.83
472_C475_K0.5440.83
372_F378_N0.5440.83
106_I120_L0.5440.83
353_R371_H0.5430.83
452_I456_L0.5420.83
89_V92_I0.5420.83
323_H326_T0.5400.83
255_Y259_G0.5400.83
107_G114_C0.5390.83
415_D421_Y0.5390.83
354_E360_E0.5390.83
168_D172_K0.5380.82
273_T276_Q0.5380.82
164_A177_M0.5380.82
375_N381_S0.5370.82
89_V94_G0.5370.82
110_T113_P0.5360.82
127_W130_L0.5350.82
142_I151_L0.5340.82
466_V513_M0.5340.82
252_V256_V0.5330.82
461_V478_V0.5320.82
131_K134_K0.5320.82
124_I131_K0.5310.82
86_G100_H0.5300.81
317_I321_H0.5290.81
209_A220_F0.5290.81
284_I287_N0.5280.81
168_D173_I0.5250.81
379_A386_L0.5250.81
213_A220_F0.5250.81
234_I237_D0.5240.81
376_A522_N0.5230.81
283_I286_K0.5230.81
109_V112_I0.5230.81
97_A102_Y0.5230.81
118_S127_W0.5230.81
309_G312_T0.5220.81
459_P520_L0.5210.80
443_D483_A0.5200.80
285_I290_E0.5200.80
214_N220_F0.5200.80
108_G112_I0.5190.80
384_I388_P0.5180.80
147_L150_T0.5180.80
472_C478_V0.5180.80
368_I373_L0.5160.80
254_A259_G0.5160.80
151_L156_V0.5150.80
373_L395_I0.5130.79
144_G154_I0.5130.79
106_I114_C0.5100.79
257_G264_Q0.5070.79
327_S331_E0.5070.79
305_L313_G0.5060.78
374_F392_R0.5050.78
397_N402_L0.5040.78
378_N381_S0.5030.78
98_G101_R0.5020.78
166_G169_I0.5020.78
272_P275_R0.5010.78
212_I219_L0.5000.78
457_I480_I0.5000.78
502_P539_R0.5000.78
416_I419_E0.5000.78
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  
4i5sA 2 0.4425 100 0.595 Contact Map
3a0rA 2 0.5381 100 0.599 Contact Map
4gczA 2 0.5912 100 0.603 Contact Map
4bixA 2 0.3593 100 0.615 Contact Map
4ctiA 2 0.3717 100 0.62 Contact Map
4q20A 2 0.3558 100 0.625 Contact Map
4mpcA 2 0.5044 100 0.627 Contact Map
3d36A 2 0.3398 100 0.629 Contact Map
2q8gA 2 0.5009 100 0.632 Contact Map
3jz3A 2 0.2442 100 0.634 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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