GREMLIN Database
RTCB - RNA-splicing ligase RtcB
UniProt: P46850 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12939
Length: 408 (370)
Sequences: 1841 (1160)
Seq/√Len: 60.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
347_K351_L5.0141.00
186_S250_M4.9161.00
288_Q293_E4.5451.00
64_K292_E4.1771.00
324_R395_E4.0241.00
347_K350_K3.8331.00
193_N197_T3.5721.00
326_L395_E3.3171.00
169_F313_P3.3161.00
30_L45_V3.1561.00
23_E26_A3.1101.00
26_A49_V3.0391.00
82_A322_I3.0371.00
303_S308_Q2.7261.00
103_I170_I2.6421.00
89_A174_L2.5141.00
382_D385_A2.4701.00
324_R397_I2.4511.00
174_L403_V2.3991.00
30_L43_I2.3971.00
206_E228_Y2.3871.00
346_T350_K2.3671.00
106_A257_A2.3431.00
81_N278_N2.2921.00
354_V373_I2.2801.00
335_C394_V2.2701.00
182_I254_V2.2581.00
103_I254_V2.2151.00
319_K399_T2.2031.00
286_K293_E2.1871.00
25_D28_Q2.1791.00
176_E399_T2.1591.00
45_V49_V2.1511.00
288_Q291_G2.1491.00
100_R404_V2.1021.00
90_E178_D2.0941.00
352_F376_I2.0871.00
195_I239_A2.0311.00
180_V403_V2.0281.00
315_S318_A2.0011.00
359_R362_A1.9941.00
102_A260_S1.9831.00
328_N333_C1.9611.00
227_E231_D1.9371.00
174_L401_R1.9171.00
32_N216_S1.8951.00
202_L228_Y1.8941.00
311_I322_I1.8661.00
210_T223_M1.8631.00
39_I43_I1.8201.00
83_L251_M1.8001.00
107_V254_V1.7900.99
95_N98_E1.7900.99
84_R274_M1.7580.99
388_A396_V1.7420.99
275_E309_Y1.7390.99
302_V310_G1.7370.99
25_D51_L1.7340.99
79_G247_R1.7320.99
233_L237_A1.7020.99
206_E210_T1.7000.99
233_L295_Y1.6790.99
119_D123_W1.6750.99
175_D398_Y1.6690.99
40_F294_I1.6680.99
176_E398_Y1.6650.99
57_I72_V1.6580.99
309_Y324_R1.6440.99
89_A178_D1.6400.99
190_G193_N1.6370.99
304_A327_G1.6370.99
89_A93_P1.6270.99
42_H290_F1.6210.99
82_A181_W1.6060.99
352_F378_M1.5720.99
111_R165_T1.5520.99
385_A388_A1.5510.99
30_L49_V1.5130.98
170_I254_V1.5110.98
163_L170_I1.5110.98
173_C183_M1.5010.98
24_A28_Q1.4930.98
388_A391_S1.4810.98
84_R275_E1.4740.98
27_R31_I1.4610.98
226_T229_F1.4310.97
343_M348_A1.4260.97
307_G324_R1.4190.97
56_T59_S1.4180.97
310_G323_V1.4170.97
360_A378_M1.4170.97
89_A403_V1.3890.97
206_E209_E1.3890.97
225_G230_D1.3850.97
59_S297_T1.3810.97
88_T179_Q1.3760.97
84_R179_Q1.3730.97
174_L180_V1.3640.97
117_K123_W1.3550.96
361_T405_C1.3540.96
322_I400_L1.3530.96
321_F383_I1.3530.96
83_L273_A1.3510.96
86_A179_Q1.3500.96
160_L249_A1.3430.96
67_I233_L1.3400.96
96_L404_V1.3340.96
107_V250_M1.3260.96
309_Y397_I1.3230.96
255_V273_A1.3220.96
236_V284_V1.3160.96
22_V27_R1.3140.96
273_A276_E1.3120.96
33_T43_I1.3090.96
286_K295_Y1.3020.96
119_D122_A1.2980.95
343_M351_L1.2890.95
102_A105_T1.2800.95
33_T71_A1.2790.95
137_L142_Q1.2760.95
329_E333_C1.2710.95
25_D347_K1.2700.95
331_S393_L1.2690.95
387_M394_V1.2480.94
38_F68_I1.2410.94
360_A363_H1.2350.94
357_Q376_I1.2320.94
318_A321_F1.2230.94
229_F233_L1.2220.94
184_L251_M1.2200.94
356_D360_A1.2180.94
130_V138_E1.2140.94
182_I258_L1.1960.93
353_S356_D1.1940.93
77_G244_S1.1840.93
176_E401_R1.1740.92
34_A43_I1.1730.92
197_T201_D1.1670.92
224_E233_L1.1640.92
314_G383_I1.1400.91
28_Q31_I1.1370.91
33_T55_S1.1330.91
224_E295_Y1.1330.91
199_F235_A1.1320.91
114_G162_T1.1300.91
77_G283_Y1.1280.91
118_R122_A1.1160.90
40_F292_E1.1130.90
204_Q217_R1.1110.90
112_T190_G1.1020.90
203_A222_F1.0990.90
287_E296_V1.0960.89
101_Q365_E1.0820.89
99_L172_I1.0750.89
284_V405_C1.0740.88
69_P169_F1.0740.88
276_E322_I1.0730.88
132_A245_L1.0660.88
305_R308_Q1.0610.88
224_E229_F1.0590.88
349_K370_A1.0570.88
244_S278_N1.0560.88
67_I274_M1.0560.88
317_G320_S1.0530.87
103_I107_V1.0500.87
364_V372_V1.0480.87
240_Q283_Y1.0410.87
233_L286_K1.0380.87
142_Q147_K1.0380.87
55_S59_S1.0280.86
174_L178_D1.0250.86
38_F65_G1.0130.85
352_F357_Q1.0100.85
219_L222_F1.0020.85
184_L250_M0.9960.84
49_V335_C0.9930.84
55_S71_A0.9890.84
199_F231_D0.9890.84
209_E212_E0.9870.84
33_T51_L0.9870.84
312_I323_V0.9860.84
312_I394_V0.9830.84
296_V303_S0.9820.84
169_F183_M0.9790.83
99_L258_L0.9790.83
26_A51_L0.9770.83
97_A101_Q0.9720.83
118_R123_W0.9630.82
92_L262_T0.9590.82
280_H283_Y0.9570.82
119_D124_E0.9570.82
84_R276_E0.9490.81
24_A27_R0.9460.81
70_A200_I0.9440.81
199_F239_A0.9430.81
109_H406_V0.9400.81
314_G320_S0.9400.81
224_E230_D0.9360.80
218_D221_Y0.9360.80
29_Q52_G0.9340.80
90_E362_A0.9290.80
117_K124_E0.9260.80
383_I387_M0.9260.80
196_G200_I0.9190.79
83_L184_L0.9160.79
21_P342_V0.9120.79
188_S192_G0.9070.78
273_A277_I0.9040.78
195_I236_V0.8980.78
82_A277_I0.8940.77
277_I309_Y0.8940.77
272_L277_I0.8940.77
107_V257_A0.8930.77
339_A377_P0.8900.77
319_K384_D0.8840.77
289_H332_F0.8800.76
77_G240_Q0.8800.76
59_S229_F0.8790.76
56_T297_T0.8760.76
26_A29_Q0.8750.76
354_V358_I0.8740.76
118_R124_E0.8700.75
82_A183_M0.8700.75
69_P313_P0.8680.75
244_S248_D0.8680.75
140_G241_L0.8680.75
80_M183_M0.8670.75
173_C400_L0.8660.75
108_P163_L0.8650.75
284_V295_Y0.8640.75
61_I71_A0.8630.75
114_G158_K0.8620.75
85_T273_A0.8610.75
102_A256_T0.8610.75
31_I35_K0.8600.75
74_V193_N0.8580.74
77_G280_H0.8570.74
21_P385_A0.8560.74
102_A257_A0.8550.74
33_T70_A0.8530.74
54_G219_L0.8450.73
208_Q213_T0.8380.73
169_F242_F0.8370.73
100_R365_E0.8370.73
321_F384_D0.8320.72
353_S373_I0.8280.72
218_D315_S0.8240.71
355_E359_R0.8230.71
363_H367_R0.8220.71
207_M212_E0.8210.71
33_T53_K0.8190.71
117_K120_K0.8190.71
74_V197_T0.8160.71
252_E256_T0.8140.70
336_S390_Q0.8100.70
209_E228_Y0.8080.70
341_R345_R0.8050.70
175_D179_Q0.8040.69
60_V301_A0.8030.69
81_N277_I0.8020.69
23_E343_M0.7990.69
202_L231_D0.7970.69
65_G224_E0.7960.69
318_A382_D0.7950.69
343_M347_K0.7940.68
302_V323_V0.7930.68
92_L256_T0.7930.68
385_A389_A0.7930.68
357_Q360_A0.7910.68
173_C320_S0.7900.68
207_M214_L0.7900.68
74_V220_A0.7890.68
120_K123_W0.7880.68
134_W141_Y0.7860.68
28_Q359_R0.7860.68
211_L223_M0.7830.67
58_G73_G0.7820.67
106_A260_S0.7810.67
249_A253_N0.7810.67
86_A272_L0.7790.67
207_M210_T0.7780.67
53_K193_N0.7770.67
96_L403_V0.7750.67
131_D135_A0.7720.66
199_F228_Y0.7690.66
102_A261_I0.7690.66
364_V367_R0.7650.66
84_R181_W0.7650.66
352_F356_D0.7650.66
42_H332_F0.7640.65
375_E380_Y0.7600.65
364_V368_K0.7580.65
152_L155_N0.7560.65
81_N248_D0.7560.65
229_F302_V0.7540.64
154_T157_Y0.7530.64
111_R114_G0.7480.64
33_T61_I0.7460.64
21_P24_A0.7450.64
50_H73_G0.7440.63
40_F64_K0.7400.63
190_G194_A0.7390.63
196_G295_Y0.7360.63
212_E221_Y0.7350.62
184_L247_R0.7310.62
27_R322_I0.7300.62
82_A276_E0.7280.62
52_G57_I0.7260.62
321_F394_V0.7250.61
62_P297_T0.7240.61
55_S61_I0.7240.61
289_H294_I0.7220.61
183_M313_P0.7200.61
137_L245_L0.7160.60
28_Q32_N0.7160.60
155_N194_A0.7160.60
58_G300_G0.7130.60
219_L287_E0.7120.60
355_E358_I0.7100.60
328_N331_S0.7090.60
230_D359_R0.7070.59
209_E227_E0.7060.59
87_L91_D0.7050.59
67_I273_A0.7030.59
183_M320_S0.7030.59
44_A383_I0.7000.59
137_L140_G0.6980.59
21_P389_A0.6970.58
256_T353_S0.6960.58
356_D363_H0.6960.58
306_A324_R0.6950.58
290_F330_E0.6930.58
314_G317_G0.6920.58
205_K208_Q0.6920.58
148_Y152_L0.6910.58
356_D359_R0.6890.58
326_L394_V0.6890.58
242_F313_P0.6830.57
28_Q388_A0.6830.57
218_D222_F0.6830.57
229_F297_T0.6820.57
149_P152_L0.6790.56
107_V247_R0.6790.56
318_A401_R0.6780.56
52_G73_G0.6770.56
172_I180_V0.6770.56
79_G163_L0.6750.56
117_K122_A0.6740.56
174_L347_K0.6740.56
358_I362_A0.6720.56
251_M255_V0.6720.56
24_A31_I0.6710.56
194_A198_Y0.6680.55
204_Q208_Q0.6660.55
387_M396_V0.6660.55
285_Q303_S0.6660.55
53_K74_V0.6660.55
134_W153_N0.6650.55
316_M325_G0.6650.55
258_L273_A0.6640.55
77_G186_S0.6620.55
357_Q374_D0.6620.55
319_K405_C0.6610.54
163_L247_R0.6600.54
375_E407_K0.6570.54
102_A106_A0.6570.54
209_E233_L0.6550.54
102_A258_L0.6540.54
326_L392_D0.6500.53
80_M250_M0.6490.53
100_R104_E0.6490.53
255_V258_L0.6490.53
290_F329_E0.6480.53
109_H250_M0.6460.53
191_I239_A0.6410.52
82_A400_L0.6380.52
357_Q361_T0.6360.52
72_V232_Y0.6360.52
160_L194_A0.6350.51
241_L309_Y0.6350.51
36_M62_P0.6350.51
91_D180_V0.6320.51
357_Q372_V0.6280.51
342_V379_A0.6280.51
54_G74_V0.6260.50
279_C283_Y0.6240.50
21_P26_A0.6230.50
251_M278_N0.6230.50
361_T368_K0.6220.50
237_A286_K0.6220.50
173_C297_T0.6210.50
81_N251_M0.6210.50
319_K401_R0.6200.50
134_W140_G0.6200.50
201_D205_K0.6190.50
247_R403_V0.6190.50
191_I238_W0.6180.50
67_I295_Y0.6170.49
59_S63_T0.6170.49
297_T393_L0.6170.49
54_G220_A0.6160.49
92_L274_M0.6150.49
196_G203_A0.6140.49
279_C302_V0.6140.49
59_S71_A0.6130.49
75_D299_K0.6130.49
97_A358_I0.6120.49
22_V49_V0.6110.49
118_R121_G0.6100.49
57_I71_A0.6100.49
47_P171_E0.6070.48
153_N191_I0.6040.48
186_S315_S0.6040.48
31_I34_A0.6020.48
317_G377_P0.6020.48
314_G321_F0.6010.48
36_M66_A0.6000.48
352_F371_E0.5990.47
131_D134_W0.5990.47
357_Q373_I0.5990.47
107_V163_L0.5970.47
189_R299_K0.5960.47
196_G236_V0.5920.47
67_I89_A0.5910.47
81_N276_E0.5910.47
74_V200_I0.5910.47
61_I68_I0.5880.46
173_C315_S0.5870.46
282_N299_K0.5860.46
73_G300_G0.5860.46
384_D399_T0.5850.46
255_V262_T0.5840.46
182_I255_V0.5830.46
171_E320_S0.5830.46
229_F295_Y0.5800.45
90_E177_S0.5790.45
121_G124_E0.5790.45
205_K329_E0.5760.45
201_D351_L0.5760.45
343_M352_F0.5750.45
251_M275_E0.5730.45
62_P294_I0.5720.44
114_G253_N0.5700.44
105_T120_K0.5700.44
27_R51_L0.5690.44
305_R333_C0.5690.44
99_L273_A0.5670.44
109_H165_T0.5660.44
364_V401_R0.5650.44
124_E153_N0.5630.43
109_H159_H0.5620.43
288_Q305_R0.5610.43
361_T374_D0.5600.43
152_L194_A0.5590.43
99_L177_S0.5570.43
55_S74_V0.5570.43
208_Q211_L0.5570.43
191_I195_I0.5560.43
72_V243_A0.5560.43
95_N261_I0.5560.43
344_S352_F0.5550.43
321_F387_M0.5540.42
189_R232_Y0.5540.42
112_T115_R0.5530.42
336_S384_D0.5500.42
368_K372_V0.5500.42
85_T312_I0.5500.42
26_A30_L0.5490.42
36_M54_G0.5480.42
227_E230_D0.5480.42
60_V71_A0.5470.42
206_E212_E0.5460.42
251_M273_A0.5460.42
225_G229_F0.5450.41
56_T302_V0.5440.41
263_Q272_L0.5430.41
173_C317_G0.5430.41
248_D276_E0.5420.41
55_S200_I0.5410.41
62_P296_V0.5410.41
204_Q218_D0.5410.41
365_E368_K0.5410.41
112_T347_K0.5400.41
354_V357_Q0.5400.41
26_A405_C0.5400.41
375_E379_A0.5390.41
326_L329_E0.5380.41
129_N256_T0.5380.41
23_E29_Q0.5370.41
240_Q405_C0.5370.41
61_I297_T0.5360.40
133_K138_E0.5350.40
40_F92_L0.5350.40
261_I353_S0.5340.40
49_V186_S0.5340.40
197_T358_I0.5340.40
57_I75_D0.5330.40
349_K373_I0.5330.40
192_G300_G0.5320.40
289_H333_C0.5310.40
244_S283_Y0.5310.40
380_Y407_K0.5310.40
132_A142_Q0.5300.40
49_V315_S0.5300.40
358_I373_I0.5280.40
77_G285_Q0.5280.40
58_G187_G0.5280.40
210_T228_Y0.5270.39
92_L105_T0.5270.39
156_N159_H0.5260.39
47_P69_P0.5260.39
32_N36_M0.5250.39
29_Q56_T0.5240.39
198_Y285_Q0.5230.39
156_N405_C0.5230.39
162_T260_S0.5230.39
187_G300_G0.5220.39
74_V283_Y0.5220.39
363_H401_R0.5220.39
85_T367_R0.5220.39
85_T181_W0.5210.39
175_D181_W0.5210.39
370_A382_D0.5200.39
202_L206_E0.5190.39
43_I53_K0.5190.39
40_F290_F0.5180.39
74_V374_D0.5180.39
298_R334_S0.5170.38
295_Y405_C0.5150.38
44_A77_G0.5140.38
34_A317_G0.5130.38
329_E359_R0.5120.38
22_V26_A0.5110.38
259_Q264_K0.5110.38
39_I59_S0.5100.38
356_D376_I0.5100.38
240_Q280_H0.5090.38
256_T355_E0.5080.37
99_L257_A0.5080.37
283_Y313_P0.5080.37
242_F302_V0.5080.37
63_T68_I0.5080.37
90_E93_P0.5060.37
29_Q73_G0.5060.37
209_E213_T0.5060.37
26_A394_V0.5060.37
205_K305_R0.5050.37
317_G339_A0.5040.37
59_S280_H0.5040.37
67_I284_V0.5030.37
103_I307_G0.5010.37
361_T364_V0.5010.37
277_I310_G0.5010.37
72_V339_A0.5000.37
357_Q378_M0.5000.37
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  
4dwrB 3 0.9926 100 0.082 Contact Map
2epgA 1 0.9093 100 0.085 Contact Map
1pbyA 1 0.1936 25.5 0.977 Contact Map
2b78A 1 0.2721 13.1 0.98 Contact Map
1y7eA 4 0.2083 11.3 0.981 Contact Map
1w2lA 1 0.1985 9.7 0.981 Contact Map
3m92A 2 0.1103 7.7 0.982 Contact Map
1kafA 1 0.2279 7.7 0.982 Contact Map
1c75A 1 0.1642 6.2 0.983 Contact Map
3or1C 1 0.1275 5.7 0.983 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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