GREMLIN Database
RTCR - Transcriptional regulatory protein RtcR
UniProt: P38035 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12356
Length: 532 (423)
Sequences: 12395 (9620)
Seq/√Len: 467.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
337_L342_K4.1801.00
484_A494_L3.9651.00
216_P362_R3.6211.00
263_V273_S3.5111.00
277_L312_Y3.4371.00
336_Q340_E3.1341.00
252_G297_D2.9851.00
378_R416_S2.9731.00
310_T319_Q2.9541.00
279_R313_P2.9021.00
248_A300_A2.8601.00
311_F322_S2.7351.00
474_L478_I2.7191.00
202_K427_T2.7091.00
310_T321_S2.6951.00
484_A491_G2.6221.00
332_R337_L2.5611.00
200_I224_L2.5201.00
490_A493_Q2.5121.00
287_F329_G2.4471.00
278_L305_A2.4331.00
263_V316_S2.4031.00
312_Y319_Q2.3971.00
483_Q494_L2.2771.00
390_N432_T2.2751.00
476_H480_I2.2691.00
408_W418_S2.2631.00
283_G323_D2.2531.00
333_D336_Q2.1941.00
473_Q505_V2.1771.00
369_E394_R2.1761.00
369_E404_P2.0921.00
406_A409_R2.0681.00
337_L340_E2.0361.00
104_E107_D2.0351.00
372_L419_V2.0111.00
336_Q339_A2.0081.00
188_T193_F2.0071.00
372_L389_F2.0051.00
278_L286_L2.0051.00
470_D508_A1.9631.00
190_N366_E1.9541.00
224_L358_L1.9341.00
293_E332_R1.9331.00
307_E416_S1.9301.00
222_S304_K1.8941.00
389_F419_V1.8941.00
237_Q323_D1.8891.00
209_A420_T1.8641.00
189_R370_P1.8371.00
256_M301_M1.7781.00
393_A403_S1.7701.00
316_S320_V1.7521.00
214_N357_T1.7351.00
306_I326_L1.7251.00
365_Q407_T1.7211.00
393_A433_L1.7171.00
365_Q369_E1.6931.00
392_E433_L1.6851.00
480_I484_A1.6841.00
240_G283_G1.6631.00
500_Q504_S1.6591.00
170_R175_R1.6571.00
365_Q368_I1.6531.00
373_D394_R1.6461.00
214_N355_T1.6241.00
396_A433_L1.6031.00
374_Y378_R1.6031.00
264_K271_R1.6011.00
390_N393_A1.5941.00
219_A358_L1.5921.00
201_E231_L1.5841.00
432_T435_V1.5741.00
480_I491_G1.5691.00
292_G330_T1.5481.00
279_R320_V1.5361.00
264_K272_E1.5311.00
263_V313_P1.5191.00
390_N430_R1.5051.00
481_C491_G1.5051.00
252_G295_G1.5031.00
334_L343_F1.5001.00
94_D97_R1.4951.00
77_I81_N1.4841.00
255_A298_E1.4731.00
275_E279_R1.4701.00
393_A431_I1.4671.00
375_E416_S1.4641.00
500_Q503_A1.4641.00
282_N323_D1.4471.00
489_A499_R1.4411.00
282_N322_S1.4371.00
479_A483_Q1.4341.00
406_A414_E1.4331.00
262_H267_F1.4301.00
171_F174_E1.4241.00
208_R237_Q1.4151.00
388_R429_G1.4101.00
142_P161_L1.4091.00
395_R405_Q1.4011.00
188_T197_I1.3991.00
469_F472_M1.3971.00
478_I482_R1.3941.00
198_E201_E1.3931.00
311_F321_S1.3901.00
489_A493_Q1.3851.00
111_H114_T1.3801.00
382_L420_T1.3791.00
379_H423_A1.3781.00
498_S501_G1.3771.00
357_T363_Q1.3741.00
472_M476_H1.3701.00
426_A435_V1.3691.00
196_M224_L1.3671.00
376_V423_A1.3661.00
468_L472_M1.3571.00
313_P316_S1.3561.00
203_V354_W1.3551.00
196_M356_F1.3471.00
110_I139_S1.3461.00
305_A311_F1.3461.00
335_R339_A1.3441.00
480_I495_F1.3411.00
208_R382_L1.3411.00
183_K227_R1.3331.00
193_F197_I1.3211.00
274_R317_D1.3201.00
389_F394_R1.3191.00
380_A388_R1.3171.00
379_H419_V1.3171.00
232_K237_Q1.3121.00
371_N375_E1.3101.00
490_A494_L1.3031.00
192_H363_Q1.3001.00
328_A351_I1.2961.00
394_R404_P1.2871.00
78_E81_N1.2861.00
477_V502_K1.2801.00
487_L499_R1.2781.00
209_A383_T1.2771.00
111_H115_G1.2761.00
262_H273_S1.2751.00
100_E103_P1.2721.00
209_A424_T1.2681.00
488_S503_A1.2681.00
504_S508_A1.2521.00
186_I193_F1.2351.00
431_I436_V1.2301.00
211_I228_I1.2281.00
488_S499_R1.2261.00
339_A345_E1.2241.00
193_F196_M1.2181.00
264_K273_S1.2161.00
368_I372_L1.2151.00
187_A374_Y1.2151.00
464_E467_D1.2111.00
82_P86_E1.2051.00
369_E372_L1.1971.00
195_R198_E1.1941.00
380_A386_S1.1911.00
335_R439_E1.1841.00
237_Q240_G1.1821.00
214_N335_R1.1821.00
216_P360_G1.1771.00
282_N324_F1.1761.00
292_G334_L1.1741.00
487_L490_A1.1741.00
475_E479_A1.1691.00
421_R425_F1.1661.00
197_I200_I1.1661.00
480_I494_L1.1631.00
200_I356_F1.1631.00
209_A353_L1.1581.00
437_E440_I1.1571.00
375_E379_H1.1571.00
376_V389_F1.1541.00
185_G230_E1.1521.00
248_A293_E1.1451.00
196_M200_I1.1371.00
392_E432_T1.1371.00
227_R231_L1.1341.00
258_T274_R1.1281.00
206_K233_Q1.1241.00
186_I224_L1.1181.00
212_L328_A1.1181.00
200_I227_R1.1171.00
499_R503_A1.1121.00
437_E441_N1.1121.00
465_N468_L1.1091.00
255_A259_L1.1031.00
170_R174_E1.1021.00
501_G505_V1.1001.00
192_H195_R1.0961.00
279_R311_F1.0921.00
226_R244_E1.0911.00
380_A387_V1.0901.00
167_I171_F1.0861.00
484_A490_A1.0861.00
242_F284_G1.0811.00
208_R233_Q1.0811.00
257_S262_H1.0791.00
135_R139_S1.0781.00
244_E304_K1.0741.00
465_N469_F1.0731.00
278_L324_F1.0681.00
375_E419_V1.0671.00
366_E404_P1.0661.00
498_S504_S1.0651.00
365_Q404_P1.0641.00
200_I228_I1.0631.00
475_E478_I1.0581.00
191_P195_R1.0561.00
309_K321_S1.0541.00
277_L280_S1.0531.00
395_R404_P1.0521.00
377_E381_S1.0491.00
422_M431_I1.0481.00
226_R230_E1.0421.00
422_M426_A1.0371.00
213_L224_L1.0331.00
93_H158_D1.0321.00
186_I223_F1.0251.00
222_S244_E1.0241.00
293_E331_V1.0211.00
80_H102_Q1.0101.00
213_L225_A1.0061.00
199_Q425_F1.0031.00
183_K200_I1.0031.00
246_N293_E1.0031.00
373_D377_E0.9991.00
116_T119_A0.9981.00
79_L83_W0.9951.00
275_E317_D0.9941.00
380_A423_A0.9911.00
468_L476_H0.9911.00
262_H266_A0.9881.00
186_I197_I0.9871.00
503_A507_D0.9861.00
353_L417_A0.9791.00
286_L305_A0.9751.00
280_S317_D0.9701.00
479_A482_R0.9661.00
497_V501_G0.9621.00
251_R314_F0.9611.00
88_V92_L0.9561.00
74_S91_C0.9561.00
476_H495_F0.9481.00
481_C506_N0.9471.00
391_T395_R0.9411.00
196_M358_L0.9391.00
313_P320_V0.9361.00
108_Y112_I0.9321.00
110_I114_T0.9321.00
183_K197_I0.9321.00
488_S502_K0.9311.00
93_H97_R0.9301.00
107_D110_I0.9281.00
210_P309_K0.9281.00
91_C94_D0.9261.00
213_L327_I0.9241.00
80_H87_E0.9221.00
200_I231_L0.9221.00
94_D112_I0.9201.00
389_F431_I0.9171.00
275_E280_S0.9161.00
189_R194_N0.9121.00
243_V280_S0.9111.00
352_N355_T0.9021.00
497_V502_K0.9021.00
278_L311_F0.9021.00
418_S422_M0.9011.00
286_L326_L0.9011.00
464_E496_D0.9011.00
502_K506_N0.9001.00
262_H314_F0.9001.00
285_M327_I0.8991.00
97_R100_E0.8981.00
481_C488_S0.8921.00
187_A370_P0.8881.00
203_V211_I0.8881.00
216_P219_A0.8861.00
194_N198_E0.8861.00
188_T370_P0.8841.00
132_L135_R0.8791.00
469_F476_H0.8771.00
389_F393_A0.8771.00
416_S420_T0.8771.00
477_V505_V0.8751.00
478_I511_L0.8711.00
278_L322_S0.8701.00
294_L298_E0.8681.00
90_A94_D0.8661.00
243_V281_A0.8661.00
197_I224_L0.8651.00
96_A108_Y0.8621.00
488_S500_Q0.8601.00
468_L471_R0.8581.00
207_S424_T0.8571.00
491_G494_L0.8561.00
197_I201_E0.8551.00
78_E82_P0.8521.00
79_L103_P0.8511.00
280_S316_S0.8481.00
488_S506_N0.8461.00
471_R475_E0.8431.00
76_E82_P0.8431.00
122_C157_I0.8421.00
262_H274_R0.8421.00
262_H271_R0.8351.00
470_D509_D0.8331.00
292_G331_V0.8291.00
194_N197_I0.8281.00
369_E373_D0.8241.00
130_R134_A0.8241.00
209_A354_W0.8231.00
246_N294_L0.8211.00
86_E94_D0.8201.00
282_N320_V0.8191.00
250_L259_L0.8171.00
383_T424_T0.8171.00
198_E427_T0.8161.00
140_S144_K0.8111.00
383_T423_A0.8061.00
171_F175_R0.8051.00
163_R168_A0.8041.00
380_A385_D0.8041.00
135_R138_Q0.8031.00
391_T394_R0.8021.00
255_A294_L0.8021.00
167_I170_R0.8011.00
266_A314_F0.8011.00
92_L96_A0.8011.00
414_E439_E0.7991.00
421_R424_T0.7981.00
133_P136_L0.7981.00
498_S503_A0.7971.00
473_Q477_V0.7961.00
501_G504_S0.7961.00
332_R342_K0.7951.00
210_P328_A0.7951.00
213_L358_L0.7941.00
163_R166_A0.7931.00
503_A506_N0.7921.00
482_R486_S0.7911.00
488_S495_F0.7911.00
267_F270_A0.7851.00
486_S506_N0.7851.00
202_K385_D0.7841.00
165_N169_S0.7841.00
481_C486_S0.7801.00
153_E160_D0.7781.00
132_L144_K0.7771.00
159_L163_R0.7751.00
140_S143_R0.7741.00
88_V94_D0.7731.00
474_L509_D0.7721.00
379_H416_S0.7721.00
86_E112_I0.7671.00
326_L351_I0.7631.00
191_P194_N0.7611.00
352_N421_R0.7591.00
376_V380_A0.7581.00
505_V509_D0.7581.00
385_D388_R0.7581.00
167_I174_E0.7571.00
379_H420_T0.7541.00
368_I404_P0.7521.00
86_E89_Y0.7501.00
225_A242_F0.7491.00
335_R355_T0.7401.00
492_R502_K0.7371.00
360_G363_Q0.7361.00
188_T224_L0.7321.00
406_A440_I0.7311.00
403_S408_W0.7311.00
311_F320_V0.7291.00
361_L415_L0.7291.00
495_F505_V0.7281.00
251_R254_T0.7261.00
335_R338_V0.7251.00
109_L121_I0.7231.00
106_E136_L0.7231.00
168_A172_A0.7221.00
183_K201_E0.7211.00
421_R437_E0.7211.00
125_L128_E0.7201.00
222_S308_E0.7201.00
372_L394_R0.7191.00
96_A100_E0.7171.00
477_V506_N0.7171.00
385_D423_A0.7151.00
275_E313_P0.7141.00
504_S507_D0.7121.00
365_Q370_P0.7101.00
379_H383_T0.7081.00
80_H86_E0.7081.00
386_S429_G0.7071.00
202_K425_F0.7011.00
499_R504_S0.7001.00
274_R277_L0.6981.00
156_I160_D0.6971.00
368_I403_S0.6971.00
96_A123_W0.6951.00
365_Q405_Q0.6921.00
378_R382_L0.6911.00
266_A270_A0.6901.00
292_G332_R0.6891.00
387_V423_A0.6881.00
131_Y135_R0.6871.00
237_Q324_F0.6871.00
107_D111_H0.6851.00
477_V495_F0.6841.00
95_F158_D0.6831.00
348_Y352_N0.6811.00
204_A232_K0.6781.00
245_V286_L0.6781.00
467_D475_E0.6771.00
353_L420_T0.6751.00
98_G132_L0.6751.00
193_F224_L0.6751.00
393_A422_M0.6741.00
183_K231_L0.6721.00
422_M436_V0.6711.00
396_A440_I0.6701.00
335_R348_Y0.6691.00
163_R167_I0.6661.00
388_R430_R0.6651.00
189_R366_E0.6631.00
75_V90_A0.6631.00
188_T194_N0.6611.00
292_G343_F0.6601.00
338_V348_Y0.6601.00
273_S318_R0.6561.00
199_Q354_W0.6561.00
195_R199_Q0.6551.00
502_K505_V0.6551.00
477_V491_G0.6531.00
198_E202_K0.6531.00
304_K308_E0.6521.00
149_R154_V0.6501.00
86_E90_A0.6501.00
208_R323_D0.6501.00
76_E79_L0.6491.00
138_Q143_R0.6491.00
85_F88_V0.6491.00
291_I351_I0.6481.00
491_G502_K0.6471.00
273_S313_P0.6471.00
92_L97_R0.6451.00
428_S435_V0.6441.00
500_Q507_D0.6441.00
99_Y127_A0.6431.00
204_A231_L0.6401.00
79_L108_Y0.6391.00
283_G324_F0.6391.00
470_D474_L0.6381.00
471_R474_L0.6381.00
103_P111_H0.6371.00
203_V356_F0.6361.00
489_A503_A0.6351.00
251_R256_M0.6321.00
465_N476_H0.6310.99
246_N249_T0.6310.99
250_L255_A0.6290.99
305_A308_E0.6290.99
274_R280_S0.6280.99
168_A171_F0.6260.99
257_S267_F0.6250.99
467_D471_R0.6190.99
487_L491_G0.6190.99
85_F91_C0.6190.99
139_S143_R0.6150.99
423_A426_A0.6120.99
396_A405_Q0.6090.99
282_N311_F0.6090.99
80_H84_D0.6080.99
110_I135_R0.6050.99
134_A138_Q0.6050.99
282_N309_K0.6020.99
88_V91_C0.6010.99
309_K322_S0.6000.99
188_T367_D0.6000.99
90_A93_H0.5990.99
470_D473_Q0.5980.99
376_V387_V0.5970.99
208_R383_T0.5950.99
486_S491_G0.5940.99
214_N331_V0.5940.99
354_W425_F0.5930.99
370_P374_Y0.5920.99
335_R345_E0.5910.99
112_I121_I0.5900.99
506_N511_L0.5900.99
354_W424_T0.5890.99
477_V509_D0.5890.99
396_A437_E0.5890.99
347_L351_I0.5880.99
309_K323_D0.5880.99
245_V259_L0.5870.99
278_L326_L0.5870.99
259_L298_E0.5860.99
214_N333_D0.5860.99
233_Q237_Q0.5860.99
245_V277_L0.5850.99
273_S316_S0.5850.99
191_P366_E0.5850.99
156_I159_L0.5850.99
188_T192_H0.5850.99
305_A324_F0.5830.99
370_P373_D0.5830.99
81_N84_D0.5830.99
382_L416_S0.5810.99
372_L422_M0.5790.99
465_N472_M0.5790.99
164_Y168_A0.5790.99
233_Q238_F0.5790.99
179_L230_E0.5760.99
466_I480_I0.5750.99
390_N433_L0.5750.99
207_S383_T0.5740.99
309_K324_F0.5730.99
316_S319_Q0.5730.99
343_F347_L0.5720.99
476_H479_A0.5720.99
427_T435_V0.5710.99
150_G153_E0.5710.99
224_L356_F0.5700.99
244_E310_T0.5700.99
146_E150_G0.5700.99
499_R502_K0.5680.99
333_D357_T0.5680.99
254_T314_F0.5680.99
253_D256_M0.5670.99
149_R153_E0.5650.99
469_F473_Q0.5630.99
254_T268_T0.5620.99
146_E153_E0.5610.99
223_F227_R0.5610.99
498_S505_V0.5610.99
418_S436_V0.5610.99
132_L136_L0.5600.99
279_R282_N0.5600.99
128_E133_P0.5590.99
222_S307_E0.5580.99
282_N321_S0.5580.99
379_H382_L0.5570.99
82_P94_D0.5570.99
488_S491_G0.5560.99
275_E311_F0.5550.99
199_Q202_K0.5550.99
206_K232_K0.5540.99
436_V439_E0.5530.99
487_L503_A0.5530.99
155_T159_L0.5520.99
149_R152_G0.5510.99
232_K325_Q0.5510.99
203_V206_K0.5510.99
109_L123_W0.5470.99
143_R148_P0.5470.99
188_T200_I0.5460.99
430_R433_L0.5460.99
292_G337_L0.5460.99
463_A471_R0.5460.99
497_V505_V0.5450.99
488_S497_V0.5440.99
241_A280_S0.5430.98
495_F501_G0.5430.98
192_H366_E0.5420.98
481_C484_A0.5420.98
94_D100_E0.5420.98
227_R230_E0.5410.98
419_V422_M0.5410.98
196_M199_Q0.5390.98
433_L437_E0.5390.98
217_T293_E0.5390.98
202_K435_V0.5370.98
181_F184_S0.5350.98
332_R341_G0.5350.98
87_E115_G0.5350.98
164_Y167_I0.5340.98
372_L403_S0.5340.98
184_S201_E0.5330.98
372_L376_V0.5320.98
74_S85_F0.5320.98
181_F185_G0.5310.98
309_K382_L0.5300.98
355_T421_R0.5290.98
78_E86_E0.5290.98
190_N193_F0.5280.98
393_A437_E0.5280.98
170_R173_E0.5280.98
86_E91_C0.5270.98
408_W503_A0.5270.98
247_C255_A0.5270.98
277_L319_Q0.5260.98
465_N495_F0.5260.98
428_S432_T0.5260.98
488_S498_S0.5250.98
166_A170_R0.5250.98
292_G329_G0.5240.98
75_V79_L0.5240.98
277_L317_D0.5240.98
480_I483_Q0.5220.98
388_R423_A0.5220.98
162_S165_N0.5220.98
77_I80_H0.5220.98
296_A300_A0.5210.98
268_T329_G0.5200.98
489_A500_Q0.5190.98
467_D472_M0.5180.98
266_A273_S0.5180.98
255_A301_M0.5160.98
418_S440_I0.5160.98
311_F319_Q0.5160.98
103_P107_D0.5150.98
72_V76_E0.5150.98
219_A223_F0.5130.98
422_M435_V0.5130.98
476_H488_S0.5100.98
473_Q509_D0.5080.98
192_H196_M0.5070.98
374_Y377_E0.5070.98
106_E109_L0.5070.98
105_K147_Q0.5070.98
149_R155_T0.5060.98
265_G270_A0.5060.98
197_I227_R0.5050.98
465_N473_Q0.5050.98
86_E92_L0.5050.98
262_H270_A0.5040.98
273_S320_V0.5030.98
181_F226_R0.5030.98
75_V83_W0.5020.98
214_N292_G0.5000.97
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  
4l4uA 2 0.7274 100 0.269 Contact Map
3dzdA 2 0.6898 100 0.436 Contact Map
1ojlA 3 0.5639 100 0.473 Contact Map
4fwgA 3 0.6128 100 0.646 Contact Map
4qhsA 3 0.4568 100 0.679 Contact Map
4qosA 1 0.4492 100 0.679 Contact Map
1qvrA 3 0.7801 100 0.701 Contact Map
4ciuA 1 0.765 100 0.711 Contact Map
4d2uA 3 0.7688 100 0.713 Contact Map
1r6bX 1 0.8026 100 0.715 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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