GREMLIN Database
RTCA - RNA 3'-terminal phosphate cyclase
UniProt: Q97W04 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 337 (315)
Sequences: 981 (733)
Seq/√Len: 41.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
24_V75_F5.0461.00
262_G266_A4.9861.00
52_V73_L3.7041.00
256_K264_E3.6951.00
202_R259_E3.6051.00
288_M314_I3.6041.00
136_L146_S3.4801.00
279_V287_L3.2341.00
129_D153_R3.0611.00
31_R72_E2.9481.00
183_L241_G2.8841.00
100_M165_I2.8531.00
20_L55_M2.8531.00
188_G237_L2.7201.00
315_R321_K2.6751.00
31_R74_T2.6531.00
303_L307_A2.5751.00
190_S203_Q2.5091.00
185_M240_I2.4021.00
203_Q233_S2.3891.00
122_V125_S2.3811.00
130_Y247_G2.2811.00
84_S113_R2.2341.00
23_S29_P2.2281.00
134_V247_G2.2271.00
278_A299_I2.2221.00
206_S262_G2.1901.00
49_L66_D2.1801.00
103_M114_I2.1530.99
311_M322_I2.1260.99
312_E315_R2.0760.99
208_K212_S2.0590.99
207_A266_A2.0450.99
281_V304_T2.0430.99
113_R164_I2.0350.99
24_V59_S1.9690.99
89_D117_K1.9640.99
147_K166_E1.9610.99
24_V55_M1.9480.99
250_S265_A1.9100.99
26_T318_L1.9080.99
157_P160_G1.8450.98
142_I175_F1.8410.98
284_S307_A1.8340.98
90_I99_I1.7720.98
107_I112_M1.7550.98
117_K162_E1.7450.98
195_L199_I1.7190.97
20_L52_V1.6920.97
191_H234_G1.6830.97
149_N164_I1.6810.97
154_G157_P1.6710.97
21_T25_I1.6330.96
127_T236_A1.5900.96
187_K240_I1.5890.96
53_R66_D1.5790.95
310_N314_I1.5710.95
94_G98_L1.5650.95
13_G47_Q1.5580.95
121_D153_R1.5450.95
210_I263_E1.5450.95
206_S263_E1.5370.95
96_V128_I1.5360.95
18_T310_N1.5060.94
138_I283_M1.5050.94
140_R145_E1.5030.94
192_V200_A1.5000.94
190_S200_A1.4930.94
155_H193_S1.4920.94
113_R166_E1.4790.94
287_L298_Y1.4580.93
239_A269_L1.4470.93
207_A265_A1.4380.93
263_E267_R1.4290.92
65_G70_S1.4270.92
312_E316_K1.4240.92
305_S308_Y1.4200.92
292_S318_L1.4030.92
108_I144_I1.3870.91
104_I304_T1.3810.91
64_K74_T1.3810.91
155_H191_H1.3760.91
285_D306_H1.3590.90
20_L49_L1.3530.90
90_I116_I1.3180.89
87_D117_K1.2920.88
55_M61_A1.2830.88
207_A235_I1.2770.87
135_Y283_M1.2770.87
207_A262_G1.2760.87
197_S201_E1.2760.87
100_M163_V1.2710.87
210_I267_R1.2690.87
288_M300_G1.2660.87
56_K63_T1.2600.87
33_F72_E1.2590.87
95_S98_L1.2460.86
128_I148_V1.2370.86
188_G234_G1.2290.85
142_I291_T1.2250.85
183_L239_A1.2250.85
121_D127_T1.2220.85
159_G232_G1.2060.84
272_N281_V1.2010.84
41_N45_Q1.1950.84
97_T131_I1.1860.83
252_G255_G1.1820.83
60_N81_K1.1780.83
151_I162_E1.1750.82
151_I164_I1.1710.82
83_N86_I1.1650.82
54_A88_I1.1610.82
241_G273_L1.1540.81
99_I102_T1.1520.81
119_G285_D1.1480.81
204_K222_T1.1470.81
176_S297_E1.1430.81
133_L238_A1.1420.81
50_W53_R1.1370.80
114_I165_I1.1370.80
271_D281_V1.1320.80
130_Y283_M1.1270.80
145_E168_V1.1220.79
265_A269_L1.1170.79
138_I177_L1.1140.79
186_I220_I1.1080.79
314_I317_F1.1060.78
98_L101_Q1.1020.78
130_Y134_V1.1010.78
184_I242_E1.0920.78
150_L189_I1.0880.77
315_R322_I1.0850.77
58_I86_I1.0810.77
188_G220_I1.0810.77
237_L269_L1.0760.76
192_V199_I1.0740.76
13_G39_R1.0710.76
179_E243_K1.0690.76
93_A98_L1.0690.76
97_T100_M1.0680.76
58_I112_M1.0550.75
30_F73_L1.0410.74
23_S30_F1.0270.73
42_P159_G1.0250.73
20_L30_F1.0200.73
174_D294_F1.0130.72
55_M75_F1.0120.72
128_I150_L1.0050.71
127_T249_D1.0020.71
93_A119_G0.9920.70
115_K162_E0.9910.70
250_S261_V0.9910.70
235_I266_A0.9890.70
39_R48_H0.9810.70
48_H94_G0.9810.70
284_S304_T0.9750.69
54_A116_I0.9740.69
126_P285_D0.9710.69
120_T161_G0.9690.69
111_N168_V0.9690.69
306_H309_T0.9690.69
96_V163_V0.9670.68
102_T105_P0.9640.68
36_R43_G0.9630.68
277_A301_A0.9500.67
42_P160_G0.9370.66
291_T311_M0.9370.66
301_A304_T0.9360.66
13_G119_G0.9330.66
190_S233_S0.9310.65
14_Q93_A0.9280.65
82_G110_K0.9270.65
307_A311_M0.9230.65
87_D115_K0.9200.65
145_E175_F0.9190.64
152_K180_L0.9170.64
39_R65_G0.9130.64
310_N313_I0.9120.64
206_S266_A0.9120.64
30_F317_F0.9080.63
306_H313_I0.9070.63
63_T66_D0.9050.63
19_S132_R0.9030.63
105_P296_G0.9020.63
115_K151_I0.9010.63
311_M324_I0.8990.63
17_R101_Q0.8920.62
16_L200_A0.8920.62
119_G126_P0.8880.62
39_R47_Q0.8870.62
131_I148_V0.8870.62
55_M102_T0.8850.61
40_P45_Q0.8850.61
235_I262_G0.8830.61
154_G159_G0.8760.61
50_W88_I0.8760.61
91_G99_I0.8760.61
303_L311_M0.8740.60
14_Q306_H0.8720.60
127_T155_H0.8710.60
92_T172_P0.8620.59
73_L317_F0.8610.59
93_A126_P0.8600.59
95_S105_P0.8600.59
47_Q93_A0.8580.59
258_A262_G0.8560.59
90_I96_V0.8520.59
93_A159_G0.8480.58
282_H286_M0.8480.58
104_I144_I0.8480.58
138_I287_L0.8460.58
26_T317_F0.8440.58
234_G262_G0.8440.58
185_M217_Q0.8410.58
39_R93_A0.8400.57
190_S207_A0.8360.57
203_Q261_V0.8360.57
98_L102_T0.8310.57
288_M311_M0.8300.57
186_I269_L0.8300.57
258_A261_V0.8290.56
279_V283_M0.8260.56
255_G261_V0.8240.56
186_I270_I0.8180.55
71_K291_T0.8090.55
162_E314_I0.8080.54
234_G239_A0.8080.54
232_G262_G0.8070.54
119_G306_H0.8070.54
86_I112_M0.8070.54
36_R44_L0.8040.54
101_Q286_M0.8040.54
39_R95_S0.8020.54
128_I234_G0.8010.54
59_S76_I0.7970.53
253_E256_K0.7930.53
218_I222_T0.7930.53
32_I163_V0.7920.53
314_I318_L0.7880.53
278_A291_T0.7860.52
20_L75_F0.7810.52
54_A99_I0.7790.52
108_I146_S0.7720.51
135_Y139_L0.7710.51
203_Q262_G0.7700.51
39_R45_Q0.7650.50
232_G259_E0.7650.50
160_G195_L0.7610.50
123_P253_E0.7590.50
62_E76_I0.7590.50
12_G17_R0.7570.50
122_V251_L0.7560.50
47_Q98_L0.7500.49
92_T98_L0.7490.49
47_Q306_H0.7460.49
13_G285_D0.7390.48
121_D191_H0.7380.48
238_A245_I0.7360.48
53_R168_V0.7320.47
285_D309_T0.7320.47
266_A270_I0.7310.47
130_Y280_D0.7300.47
157_P232_G0.7280.47
203_Q235_I0.7280.47
115_K164_I0.7280.47
194_S231_K0.7210.46
62_E78_H0.7180.46
163_V197_S0.7170.46
51_A102_T0.7150.46
126_P306_H0.7130.46
142_I174_D0.7110.45
170_G173_S0.7100.45
66_D70_S0.7080.45
14_Q39_R0.7050.45
59_S78_H0.7050.45
150_L163_V0.7040.45
92_T306_H0.7020.45
136_L148_V0.7000.44
47_Q101_Q0.7000.44
39_R285_D0.7000.44
88_I272_N0.6990.44
210_I266_A0.6970.44
19_S325_S0.6950.44
20_L63_T0.6950.44
14_Q98_L0.6920.44
185_M219_E0.6920.44
71_K96_V0.6910.44
19_S70_S0.6910.44
246_I280_D0.6890.43
58_I103_M0.6880.43
249_D265_A0.6880.43
39_R286_M0.6870.43
100_M104_I0.6820.43
179_E299_I0.6820.43
233_S252_G0.6810.43
305_S309_T0.6800.43
95_S122_V0.6780.42
59_S62_E0.6760.42
206_S209_A0.6760.42
148_V165_I0.6760.42
99_I114_I0.6750.42
201_E205_D0.6740.42
45_Q68_V0.6720.42
296_G306_H0.6710.42
188_G204_K0.6660.41
92_T126_P0.6630.41
286_M306_H0.6610.41
271_D274_N0.6580.41
281_V302_E0.6570.41
13_G17_R0.6570.41
246_I272_N0.6560.40
58_I107_I0.6550.40
211_L266_A0.6510.40
34_N38_N0.6490.40
86_I114_I0.6490.40
210_I270_I0.6490.40
39_R119_G0.6470.40
241_G278_A0.6470.40
16_L35_I0.6460.40
98_L306_H0.6440.39
130_Y285_D0.6430.39
31_R194_S0.6420.39
14_Q47_Q0.6400.39
244_S272_N0.6400.39
121_D129_D0.6400.39
207_A211_L0.6380.39
59_S219_E0.6380.39
93_A306_H0.6380.39
39_R309_T0.6370.39
80_I223_D0.6360.39
121_D234_G0.6350.39
186_I239_A0.6330.38
261_V265_A0.6330.38
289_I310_N0.6320.38
241_G244_S0.6300.38
292_S322_I0.6270.38
321_K324_I0.6250.38
32_I146_S0.6240.38
291_T298_Y0.6240.38
37_A49_L0.6230.38
82_G109_N0.6220.37
105_P285_D0.6200.37
93_A285_D0.6190.37
170_G274_N0.6190.37
135_Y304_T0.6180.37
72_E165_I0.6180.37
248_A272_N0.6160.37
39_R126_P0.6130.37
131_I165_I0.6120.37
93_A157_P0.6080.36
308_Y312_E0.6080.36
148_V162_E0.6070.36
47_Q285_D0.6060.36
55_M88_I0.6060.36
54_A103_M0.6060.36
129_D132_R0.6030.36
98_L105_P0.6020.36
64_K182_K0.6000.36
14_Q285_D0.6000.36
88_I103_M0.5970.35
248_A269_L0.5950.35
116_I165_I0.5950.35
12_G36_R0.5920.35
119_G143_G0.5910.35
16_L73_L0.5900.35
293_L306_H0.5900.35
220_I243_K0.5900.35
277_A284_S0.5890.35
152_K162_E0.5880.35
291_T322_I0.5880.35
96_V114_I0.5860.34
177_L299_I0.5840.34
259_E262_G0.5830.34
39_R306_H0.5830.34
100_M116_I0.5820.34
199_I233_S0.5810.34
29_P173_S0.5810.34
18_T289_I0.5790.34
132_R192_V0.5780.34
188_G239_A0.5780.34
48_H51_A0.5770.34
51_A167_N0.5760.34
88_I116_I0.5740.33
143_G255_G0.5730.33
39_R98_L0.5720.33
130_Y236_A0.5720.33
54_A90_I0.5710.33
181_G242_E0.5700.33
133_L236_A0.5690.33
123_P141_K0.5690.33
268_K286_M0.5670.33
14_Q17_R0.5670.33
73_L266_A0.5640.33
73_L108_I0.5630.32
202_R232_G0.5630.32
288_M322_I0.5630.32
92_T119_G0.5620.32
20_L272_N0.5620.32
19_S313_I0.5610.32
48_H98_L0.5600.32
308_Y313_I0.5580.32
59_S201_E0.5560.32
25_I106_A0.5560.32
12_G120_T0.5560.32
48_H119_G0.5550.32
98_L285_D0.5550.32
311_M314_I0.5540.32
25_I113_R0.5540.32
206_S210_I0.5510.31
95_S306_H0.5510.31
253_E261_V0.5500.31
68_V114_I0.5490.31
233_S247_G0.5490.31
131_I174_D0.5490.31
299_I327_K0.5480.31
232_G239_A0.5460.31
219_E222_T0.5440.31
172_P294_F0.5440.31
16_L42_P0.5410.31
190_S265_A0.5390.31
237_L240_I0.5390.31
148_V201_E0.5390.31
264_E288_M0.5390.31
21_T24_V0.5370.30
31_R167_N0.5350.30
119_G125_S0.5350.30
197_S202_R0.5340.30
284_S303_L0.5330.30
28_K60_N0.5330.30
155_H248_A0.5310.30
28_K131_I0.5310.30
30_F55_M0.5300.30
137_E249_D0.5290.30
206_S211_L0.5290.30
172_P293_L0.5290.30
237_L320_V0.5280.30
305_S312_E0.5270.30
128_I153_R0.5270.30
181_G239_A0.5270.30
95_S296_G0.5260.29
177_L279_V0.5260.29
95_S104_I0.5250.29
16_L30_F0.5240.29
106_A230_S0.5230.29
83_N231_K0.5230.29
195_L259_E0.5230.29
19_S23_S0.5220.29
198_H204_K0.5210.29
158_E248_A0.5210.29
269_L276_K0.5200.29
291_T312_E0.5200.29
97_T235_I0.5190.29
232_G252_G0.5160.29
42_P157_P0.5160.29
280_D304_T0.5150.29
158_E290_F0.5140.29
204_K282_H0.5140.29
108_I135_Y0.5130.29
247_G280_D0.5120.28
173_S176_S0.5120.28
75_F248_A0.5120.28
43_G161_G0.5090.28
279_V307_A0.5090.28
20_L66_D0.5070.28
153_R161_G0.5070.28
47_Q92_T0.5060.28
111_N169_N0.5050.28
154_G161_G0.5050.28
128_I163_V0.5050.28
230_S311_M0.5050.28
113_R146_S0.5010.28
94_G99_I0.5000.28
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  
4o89A 1 0.9941 100 0.048 Contact Map
3tutA 1 0.9822 100 0.093 Contact Map
4clqA 1 0.9792 100 0.134 Contact Map
2o0bA 1 0.7834 95.2 0.943 Contact Map
3nvsA 1 0.8042 94.1 0.946 Contact Map
1rf6A 1 0.822 93.4 0.948 Contact Map
2yvwA 1 0.7389 92.8 0.949 Contact Map
3rmtA 4 0.822 90.4 0.952 Contact Map
3zh4A 1 0.7537 87.5 0.954 Contact Map
2pqcA 1 0.8902 86.9 0.955 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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