GREMLIN Database
RNJ - Ribonuclease J
UniProt: Q9HQI4 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 448 (392)
Sequences: 5663 (3683)
Seq/√Len: 186.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
77_I90_I4.2251.00
26_D75_K3.7641.00
78_V159_P3.6071.00
162_H167_A3.5791.00
30_F80_T3.2931.00
135_T143_E3.2761.00
79_P111_V3.0971.00
104_S157_I3.0391.00
103_G108_I3.0221.00
4_E22_R3.0131.00
421_A425_K2.8161.00
160_V167_A2.7411.00
143_E162_H2.7161.00
203_C408_I2.6461.00
137_E143_E2.6261.00
78_V144_L2.6041.00
22_R27_I2.5981.00
229_D233_S2.5231.00
400_D427_Q2.4901.00
392_E423_L2.4491.00
68_S96_R2.3911.00
6_A443_T2.3141.00
135_T145_E2.3001.00
19_T410_A2.2571.00
144_L161_L2.2281.00
231_L241_I2.2171.00
100_P128_V2.1431.00
28_V76_A2.1291.00
21_V30_F2.0751.00
5_I205_I2.0371.00
131_E134_G2.0131.00
233_S379_R2.0091.00
27_I73_D2.0021.00
237_Y379_R1.9861.00
109_E284_M1.9291.00
206_E409_P1.9291.00
349_K381_Y1.9201.00
30_F170_Y1.9191.00
102_V130_M1.9161.00
408_I444_I1.9121.00
145_E162_H1.9071.00
70_L73_D1.8981.00
77_I93_L1.8921.00
146_F159_P1.8771.00
417_M437_M1.8741.00
132_A157_I1.8571.00
425_K431_I1.8481.00
228_K262_E1.8261.00
144_L159_P1.8101.00
130_M146_F1.8021.00
169_V201_V1.7951.00
109_E283_R1.7901.00
438_T444_I1.7701.00
314_K345_E1.7681.00
162_H197_E1.7601.00
193_E196_R1.7441.00
108_I127_L1.7141.00
21_V161_L1.6951.00
202_L405_Q1.6881.00
105_P131_E1.6691.00
77_I99_A1.6641.00
5_I203_C1.6501.00
208_C420_Y1.6501.00
312_E317_F1.6271.00
158_N169_V1.6251.00
192_R195_G1.6151.00
317_F320_I1.6091.00
422_K425_K1.6091.00
130_M136_M1.6051.00
112_K116_E1.5901.00
108_I129_K1.5891.00
214_K392_E1.5851.00
214_K393_E1.5771.00
204_Y402_L1.5751.00
111_V127_L1.5651.00
345_E348_D1.5541.00
28_V142_C1.5381.00
5_I21_V1.5371.00
205_I410_A1.5221.00
103_G111_V1.5211.00
147_V158_N1.5211.00
312_E316_N1.5191.00
230_V351_I1.5081.00
343_D374_R1.5021.00
76_A102_V1.4931.00
145_E160_V1.4681.00
3_I168_V1.4631.00
27_I74_V1.4621.00
241_I351_I1.4621.00
20_A27_I1.4611.00
160_V169_V1.4571.00
6_A22_R1.4511.00
421_A435_L1.4501.00
406_H436_H1.4411.00
260_A318_L1.4251.00
419_P422_K1.4201.00
306_F310_M1.4171.00
80_T170_Y1.4151.00
268_I309_V1.4141.00
289_F292_D1.4121.00
26_D140_D1.3921.00
399_L424_A1.3861.00
321_V326_G1.3771.00
4_E443_T1.3741.00
407_L424_A1.3691.00
204_Y399_L1.3541.00
409_P417_M1.3531.00
269_L278_S1.3461.00
29_I74_V1.3461.00
18_M29_I1.3311.00
250_I277_Y1.3191.00
26_D139_G1.3191.00
260_A267_P1.3131.00
87_I111_V1.3071.00
79_P103_G1.3011.00
208_C412_Q1.2981.00
407_L420_Y1.2971.00
105_P129_K1.2901.00
344_I378_A1.2881.00
436_H444_I1.2831.00
169_V204_Y1.2811.00
243_A256_L1.2751.00
308_R311_N1.2731.00
206_E420_Y1.2691.00
242_V335_M1.2691.00
64_D93_L1.2691.00
315_E320_I1.2671.00
228_K263_I1.2621.00
289_F293_L1.2611.00
76_A138_I1.2601.00
306_F309_V1.2561.00
153_I388_G1.2531.00
231_L260_A1.2441.00
78_V161_L1.2431.00
342_Y348_D1.2371.00
86_H411_H1.2351.00
8_I20_A1.2341.00
104_S146_F1.2311.00
169_V402_L1.2261.00
147_V160_V1.2211.00
279_G283_R1.2201.00
322_T327_E1.2201.00
29_I67_M1.2181.00
239_G349_K1.2071.00
439_E442_N1.2061.00
78_V146_F1.2041.00
206_E399_L1.1941.00
352_F365_Q1.1881.00
226_H229_D1.1811.00
30_F159_P1.1781.00
177_D397_Q1.1781.00
225_R229_D1.1771.00
237_Y349_K1.1751.00
356_V362_N1.1751.00
20_A29_I1.1701.00
84_L114_E1.1601.00
424_A428_G1.1501.00
357_I360_P1.1451.00
191_F194_I1.1361.00
76_A100_P1.1341.00
305_A308_R1.1311.00
196_R403_Q1.1301.00
399_L407_L1.1221.00
206_E407_L1.1211.00
79_P107_T1.1141.00
174_K206_E1.1121.00
51_H54_D1.1111.00
423_L427_Q1.1071.00
358_P363_K1.1071.00
366_R382_D1.1011.00
23_A142_C1.1001.00
228_K232_T1.0961.00
92_K96_R1.0961.00
289_F294_G1.0921.00
191_F195_G1.0911.00
171_G206_E1.0891.00
79_P90_I1.0871.00
392_E419_P1.0851.00
50_M54_D1.0821.00
344_I374_R1.0761.00
113_G280_T1.0751.00
12_E414_M1.0721.00
320_I326_G1.0691.00
86_H173_D1.0671.00
253_V269_L1.0651.00
416_G420_Y1.0641.00
224_R262_E1.0631.00
390_L394_G1.0601.00
132_A148_H1.0591.00
212_G415_K1.0571.00
396_Y423_L1.0561.00
217_T391_R1.0501.00
292_D295_M1.0461.00
83_H389_H1.0421.00
163_T166_G1.0391.00
94_A101_I1.0391.00
28_V75_K1.0341.00
22_R73_D1.0311.00
340_T372_L1.0301.00
5_I19_T1.0291.00
28_V78_V1.0281.00
133_G147_V1.0241.00
30_F205_I1.0241.00
418_A421_A1.0221.00
104_S107_T1.0211.00
78_V138_I1.0211.00
132_A156_A1.0211.00
422_K426_S1.0141.00
81_H151_H1.0080.99
256_L318_L1.0060.99
330_A352_F1.0040.99
230_V381_Y1.0020.99
106_F287_V0.9980.99
414_M418_A0.9950.99
23_A164_P0.9950.99
313_G316_N0.9800.99
393_E396_Y0.9790.99
27_I75_K0.9790.99
330_A333_T0.9760.99
81_H86_H0.9760.99
156_A172_L0.9690.99
83_H151_H0.9690.99
82_G153_I0.9670.99
4_E445_Q0.9620.99
160_V194_I0.9610.99
149_V156_A0.9570.99
396_Y427_Q0.9530.99
21_V170_Y0.9460.99
81_H389_H0.9460.99
11_Y440_N0.9440.99
424_A429_Y0.9440.99
85_D389_H0.9390.99
201_V204_Y0.9390.99
27_I67_M0.9380.99
288_N292_D0.9380.99
23_A26_D0.9350.99
245_T253_V0.9310.99
79_P87_I0.9290.99
67_M74_V0.9280.99
214_K391_R0.9270.99
393_E397_Q0.9250.99
80_T159_P0.9250.99
80_T205_I0.9240.99
135_T162_H0.9220.99
71_E97_Y0.9210.99
171_G398_M0.9150.99
14_V209_T0.9150.99
257_V267_P0.9130.99
209_T411_H0.9090.99
254_S258_E0.9050.99
149_V158_N0.9030.99
245_T319_P0.9030.99
68_S71_E0.9020.99
19_T30_F0.9020.99
217_T220_E0.9000.99
350_I378_A0.8970.99
346_D377_G0.8910.99
436_H442_N0.8900.99
243_A353_S0.8870.99
291_D294_G0.8840.99
12_E439_E0.8830.99
375_M439_E0.8820.99
22_R25_D0.8780.99
25_D73_D0.8700.98
21_V28_V0.8680.98
295_M312_E0.8680.98
309_V312_E0.8660.98
259_F386_V0.8650.98
169_V194_I0.8620.98
290_P294_G0.8610.98
83_H86_H0.8610.98
11_Y438_T0.8610.98
174_K395_H0.8600.98
351_I381_Y0.8530.98
6_A20_A0.8520.98
409_P435_L0.8480.98
173_D411_H0.8470.98
397_Q400_D0.8470.98
264_G316_N0.8470.98
399_L429_Y0.8440.98
94_A98_D0.8370.98
425_K435_L0.8370.98
158_N174_K0.8330.98
30_F161_L0.8310.98
171_G204_Y0.8250.98
104_S155_D0.8230.98
307_K311_N0.8210.98
192_R196_R0.8200.98
421_A437_M0.8200.98
108_I112_K0.8190.98
50_M56_I0.8150.98
261_K290_P0.8140.98
206_E395_H0.8100.98
242_V348_D0.8050.97
113_G276_R0.8040.97
212_G419_P0.8020.97
343_D350_I0.8020.97
136_M144_L0.8010.97
316_N320_I0.8000.97
85_D411_H0.7950.97
133_G193_E0.7940.97
395_H423_L0.7930.97
142_C163_T0.7910.97
392_E395_H0.7900.97
137_E140_D0.7880.97
407_L429_Y0.7840.97
215_G391_R0.7770.97
328_P333_T0.7760.97
114_E250_I0.7760.97
336_G372_L0.7760.97
226_H382_D0.7740.97
109_E280_T0.7730.97
109_E112_K0.7720.97
26_D76_A0.7720.97
240_G342_Y0.7710.97
30_F410_A0.7700.97
365_Q376_Q0.7700.97
211_A395_H0.7690.97
78_V139_G0.7690.97
85_D209_T0.7690.97
193_E197_E0.7670.97
276_R279_G0.7650.97
337_R372_L0.7650.97
148_H183_E0.7640.97
90_I115_I0.7620.97
240_G348_D0.7600.96
87_I114_E0.7590.96
103_G127_L0.7570.96
208_C417_M0.7560.96
227_L231_L0.7550.96
258_E288_N0.7550.96
28_V161_L0.7540.96
78_V136_M0.7540.96
151_H389_H0.7530.96
147_V169_V0.7500.96
18_M32_M0.7500.96
85_D151_H0.7490.96
231_L318_L0.7480.96
252_R388_G0.7460.96
86_H151_H0.7410.96
116_E119_Q0.7410.96
107_T254_S0.7390.96
400_D428_G0.7370.96
317_F321_V0.7370.96
259_F263_I0.7350.96
309_V317_F0.7310.96
53_L56_I0.7310.96
21_V168_V0.7260.95
238_D315_E0.7250.95
176_M394_G0.7230.95
95_H118_E0.7220.95
307_K341_P0.7220.95
290_P293_L0.7210.95
230_V233_S0.7210.95
204_Y407_L0.7200.95
110_L277_Y0.7190.95
420_Y423_L0.7170.95
227_L351_I0.7170.95
224_R255_S0.7170.95
246_F354_A0.7140.95
372_L375_M0.7100.95
182_L251_S0.7090.95
176_M398_M0.7090.95
81_H85_D0.7070.95
200_G405_Q0.7060.95
76_A139_G0.7030.95
82_G107_T0.7030.95
278_S320_I0.7020.95
240_G314_K0.7020.95
26_D73_D0.7010.94
397_Q401_A0.7010.94
399_L420_Y0.6970.94
133_G145_E0.6960.94
241_I349_K0.6960.94
105_P284_M0.6940.94
269_L275_E0.6930.94
233_S381_Y0.6910.94
23_A140_D0.6910.94
370_E374_R0.6890.94
83_H411_H0.6870.94
28_V138_I0.6850.94
209_T246_F0.6850.94
178_H400_D0.6830.94
240_G316_N0.6820.94
167_A197_E0.6810.94
177_D394_G0.6800.94
21_V142_C0.6800.94
83_H173_D0.6720.93
67_M71_E0.6720.93
97_Y100_P0.6720.93
428_G431_I0.6710.93
272_R334_R0.6670.93
418_A422_K0.6660.93
150_T251_S0.6650.93
429_Y435_L0.6630.93
147_V194_I0.6610.93
173_D389_H0.6590.92
12_E417_M0.6570.92
85_D172_L0.6560.92
114_E273_S0.6550.92
65_R68_S0.6550.92
270_L335_M0.6520.92
438_T442_N0.6510.92
216_R226_H0.6500.92
329_Q333_T0.6490.92
291_D295_M0.6470.92
246_F411_H0.6450.92
19_T170_Y0.6440.92
414_M437_M0.6420.91
191_F402_L0.6410.91
308_R312_E0.6400.91
424_A430_K0.6370.91
391_R394_G0.6370.91
203_C405_Q0.6370.91
149_V191_F0.6370.91
335_M342_Y0.6360.91
328_P332_L0.6350.91
211_A419_P0.6330.91
226_H230_V0.6330.91
228_K259_F0.6320.91
374_R380_I0.6320.91
420_Y424_A0.6300.91
118_E121_F0.6290.91
86_H389_H0.6250.90
314_K317_F0.6240.90
87_I110_L0.6240.90
261_K267_P0.6230.90
201_V402_L0.6230.90
50_M53_L0.6220.90
13_E16_R0.6210.90
3_I165_E0.6210.90
166_G202_L0.6210.90
310_M318_L0.6200.90
86_H209_T0.6200.90
349_K379_R0.6190.90
102_V128_V0.6190.90
32_M77_I0.6180.90
54_D63_D0.6170.90
229_D232_T0.6150.90
224_R259_F0.6150.90
256_L260_A0.6150.90
216_R221_S0.6130.89
233_S237_Y0.6130.89
52_S56_I0.6120.89
148_H155_D0.6110.89
351_I359_E0.6100.89
120_K124_E0.6100.89
85_D173_D0.6090.89
24_G140_D0.6090.89
29_I32_M0.6030.89
26_D142_C0.6030.89
89_A92_K0.6030.89
82_G87_I0.6020.89
230_V349_K0.6000.88
286_R293_L0.5980.88
409_P437_M0.5970.88
423_L426_S0.5970.88
9_G13_E0.5970.88
207_D389_H0.5960.88
288_N291_D0.5950.88
74_V77_I0.5950.88
259_F262_E0.5930.88
362_N365_Q0.5910.88
149_V398_M0.5910.88
8_I69_D0.5910.88
258_E261_K0.5910.88
261_K293_L0.5900.88
373_L377_G0.5900.88
83_H207_D0.5890.88
240_G312_E0.5890.88
225_R228_K0.5890.88
343_D376_Q0.5890.88
174_K390_L0.5880.87
200_G402_L0.5870.87
130_M157_I0.5870.87
130_M144_L0.5870.87
13_E35_N0.5860.87
90_I101_I0.5860.87
106_F154_I0.5840.87
90_I99_A0.5840.87
103_G107_T0.5840.87
7_T408_I0.5840.87
361_T365_Q0.5820.87
279_G282_E0.5820.87
178_H397_Q0.5820.87
369_S372_L0.5810.87
83_H172_L0.5810.87
142_C161_L0.5810.87
168_V203_C0.5810.87
406_H431_I0.5790.87
230_V383_D0.5780.87
209_T389_H0.5780.87
11_Y19_T0.5770.86
3_I23_A0.5770.86
242_V321_V0.5760.86
71_E74_V0.5750.86
319_P322_T0.5750.86
252_R387_S0.5750.86
239_G347_G0.5740.86
90_I102_V0.5730.86
7_T19_T0.5710.86
330_A335_M0.5700.86
64_D67_M0.5700.86
3_I7_T0.5680.86
306_F312_E0.5670.86
327_E331_M0.5660.85
389_H411_H0.5660.85
113_G116_E0.5650.85
216_R397_Q0.5650.85
338_G343_D0.5640.85
332_L336_G0.5640.85
180_P224_R0.5620.85
19_T80_T0.5620.85
361_T369_S0.5610.85
16_R355_S0.5590.85
212_G416_G0.5580.85
172_L389_H0.5570.85
167_A202_L0.5560.84
11_Y410_A0.5550.84
312_E315_E0.5540.84
30_F168_V0.5520.84
172_L209_T0.5510.84
371_Q377_G0.5510.84
216_R393_E0.5500.84
394_G397_Q0.5490.84
94_A115_I0.5480.84
410_A417_M0.5480.84
238_D241_I0.5450.83
385_H388_G0.5440.83
396_Y424_A0.5440.83
268_I312_E0.5440.83
5_I408_I0.5430.83
371_Q413_D0.5380.82
213_K391_R0.5360.82
194_I402_L0.5350.82
71_E98_D0.5350.82
90_I111_V0.5340.82
240_G266_E0.5340.82
151_H252_R0.5330.82
373_L376_Q0.5330.82
372_L376_Q0.5320.82
275_E279_G0.5310.82
287_V292_D0.5310.82
151_H411_H0.5310.82
414_M417_M0.5310.82
18_M89_A0.5310.82
29_I93_L0.5300.82
315_E318_L0.5290.81
81_H411_H0.5290.81
7_T438_T0.5290.81
94_A97_Y0.5280.81
167_A200_G0.5270.81
340_T344_I0.5270.81
321_V327_E0.5250.81
286_R292_D0.5250.81
64_D97_Y0.5230.81
7_T11_Y0.5230.81
151_H173_D0.5220.81
395_H420_Y0.5220.81
77_I97_Y0.5210.80
21_V205_I0.5200.80
340_T370_E0.5190.80
170_Y205_I0.5180.80
224_R228_K0.5170.80
51_H55_L0.5170.80
175_R388_G0.5160.80
16_R356_V0.5150.80
266_E316_N0.5130.79
417_M420_Y0.5120.79
107_T130_M0.5120.79
428_G435_L0.5120.79
28_V144_L0.5120.79
64_D68_S0.5110.79
392_E396_Y0.5100.79
355_S358_P0.5100.79
288_N293_L0.5100.79
121_F332_L0.5080.79
20_A67_M0.5070.79
355_S364_G0.5070.79
317_F322_T0.5040.78
354_A358_P0.5040.78
29_I77_I0.5030.78
102_V138_I0.5030.78
305_A310_M0.5030.78
305_A309_V0.5020.78
370_E380_I0.5020.78
398_M402_L0.5020.78
91_S118_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  
3bk2A 2 0.9286 100 0.279 Contact Map
3zq4A 3 0.9263 100 0.294 Contact Map
2i7tA 1 0.8259 100 0.327 Contact Map
3iekA 3 0.8839 100 0.333 Contact Map
2ycbA 2 0.9107 100 0.343 Contact Map
3af5A 1 0.9129 100 0.353 Contact Map
2xr1A 2 0.8996 100 0.353 Contact Map
2i7xA 1 0.8973 100 0.409 Contact Map
2az4A 1 0.8661 100 0.417 Contact Map
4b87A 1 0.7254 100 0.506 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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