GREMLIN Database
RADA - DNA repair protein RadA homolog
UniProt: P37572 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 458 (450)
Sequences: 6330 (3540)
Seq/√Len: 166.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
428_A446_A6.0901.00
423_R441_E4.3571.00
428_A431_L4.0551.00
406_V409_I3.9391.00
390_A422_K3.8331.00
423_R443_I3.7931.00
206_K227_P3.6361.00
313_A377_S3.6201.00
60_S64_S3.4681.00
443_I454_T3.3641.00
203_K207_T3.1321.00
413_V424_M3.1001.00
65_I113_A2.9741.00
417_A439_G2.9691.00
375_V397_V2.7331.00
163_I171_V2.7331.00
431_L444_G2.6521.00
413_V440_I2.5071.00
46_R53_V2.4701.00
426_I444_G2.4331.00
226_G229_L2.3911.00
409_I426_I2.3571.00
12_S29_A2.3231.00
232_H236_T2.3081.00
293_A384_D2.2921.00
296_S393_F2.2331.00
446_A450_E2.2311.00
426_I442_V2.2081.00
413_V442_V2.2031.00
372_L451_A2.2031.00
126_S134_T2.1821.00
46_R50_S2.1761.00
50_S53_V2.1621.00
425_I445_V2.1611.00
172_V175_S2.1521.00
376_I387_P2.1501.00
425_I454_T2.0981.00
270_R273_G2.0711.00
445_V451_A2.0681.00
375_V448_V2.0551.00
392_C421_F2.0261.00
45_R53_V1.9991.00
376_I393_F1.9941.00
172_V177_Q1.9821.00
423_R454_T1.9721.00
391_D423_R1.9511.00
393_F425_I1.9421.00
434_W444_G1.9221.00
298_T373_A1.9141.00
379_A452_L1.8601.00
260_S276_E1.8491.00
403_V445_V1.8411.00
376_I451_A1.8371.00
172_V176_I1.8351.00
171_V175_S1.8321.00
315_I381_S1.8231.00
74_K81_N1.8191.00
198_T235_D1.8091.00
11_Q34_V1.8081.00
338_L375_V1.8051.00
450_E453_R1.7981.00
445_V450_E1.7911.00
35_E39_K1.7721.00
23_K28_G1.7721.00
108_L215_V1.7521.00
323_P335_V1.7481.00
217_H251_L1.7431.00
425_I451_A1.7301.00
171_V177_Q1.7281.00
46_R52_S1.7221.00
58_K62_I1.7151.00
121_S169_S1.6971.00
66_E113_A1.6901.00
345_R449_A1.6841.00
17_S33_M1.6791.00
29_A32_T1.6691.00
149_H166_M1.6621.00
175_S179_V1.6581.00
45_R50_S1.6511.00
93_L202_M1.6401.00
329_G332_H1.6391.00
21_M33_M1.6331.00
120_N169_S1.6291.00
174_D177_Q1.6251.00
320_F354_D1.6211.00
176_I179_V1.6121.00
15_Y25_P1.6031.00
202_M231_E1.5961.00
213_F251_L1.5881.00
61_P64_S1.5791.00
175_S180_Y1.5761.00
394_I409_I1.5741.00
311_I373_A1.5741.00
133_Q150_V1.5651.00
236_T281_S1.5631.00
332_H336_S1.5561.00
388_N423_R1.5501.00
7_K16_E1.5461.00
175_S183_D1.5381.00
318_T322_N1.5361.00
257_R267_F1.5291.00
163_I204_I1.5281.00
155_D182_S1.5211.00
44_N53_V1.5201.00
45_R52_S1.5131.00
273_G277_V1.5091.00
253_A269_M1.5011.00
176_I183_D1.5001.00
350_L382_F1.5001.00
232_H281_S1.4991.00
224_I254_V1.4921.00
43_A46_R1.4871.00
232_H274_L1.4741.00
339_M355_A1.4741.00
15_Y33_M1.4671.00
49_F53_V1.4671.00
135_K139_D1.4461.00
61_P65_I1.4331.00
17_S25_P1.4321.00
171_V176_I1.4241.00
447_N450_E1.4181.00
171_V212_I1.4121.00
409_I413_V1.4011.00
392_C424_M1.4011.00
308_L419_L1.3991.00
175_S178_T1.3991.00
357_L374_I1.3971.00
9_I16_E1.3911.00
204_I210_I1.3911.00
437_P442_V1.3881.00
424_M440_I1.3731.00
319_S351_Q1.3681.00
249_R252_R1.3661.00
233_M253_A1.3651.00
257_R261_T1.3591.00
296_S387_P1.3591.00
185_T190_S1.3561.00
232_H271_E1.3361.00
37_M42_P1.3331.00
161_S164_Q1.3291.00
256_N277_V1.3261.00
335_V357_L1.3241.00
203_K206_K1.3191.00
284_F429_A1.3041.00
313_A381_S1.2861.00
210_I250_I1.2821.00
42_P50_S1.2821.00
210_I230_L1.2821.00
171_V174_D1.2811.00
372_L403_V1.2751.00
10_C17_S1.2601.00
172_V179_V1.2601.00
37_M50_S1.2601.00
50_S54_Q1.2551.00
227_P231_E1.2531.00
222_G225_A1.2491.00
171_V180_Y1.2471.00
394_I406_V1.2441.00
177_Q180_Y1.2421.00
220_K223_S1.2381.00
37_M54_Q1.2371.00
225_A266_I1.2361.00
202_M227_P1.2221.00
293_A386_P1.2211.00
15_Y26_G1.2181.00
70_E132_K1.2141.00
76_Q81_N1.2131.00
171_V179_V1.2101.00
179_V190_S1.2091.00
14_G17_S1.2081.00
107_L193_Q1.2071.00
206_K230_L1.2061.00
173_V177_Q1.2051.00
72_R252_R1.1801.00
177_Q183_D1.1721.00
376_I452_L1.1531.00
174_D178_T1.1511.00
315_I353_Q1.1511.00
341_V448_V1.1451.00
291_G389_P1.1441.00
231_E235_D1.1431.00
121_S147_S1.1331.00
160_S204_I1.1261.00
342_L379_A1.1241.00
372_L445_V1.1211.00
172_V183_D1.1161.00
226_G268_E1.1111.00
260_S277_V1.1101.00
228_R231_E1.1081.00
316_S340_A1.1061.00
229_L274_L1.1031.00
176_I180_Y1.1031.00
317_P353_Q1.1011.00
174_D179_V1.1001.00
172_V180_Y1.0971.00
204_I208_K1.0961.00
59_P62_I1.0951.00
63_T146_P1.0921.00
341_V345_R1.0911.00
316_S343_E1.0891.00
297_I308_L1.0881.00
128_E162_A1.0881.00
273_G276_E1.0861.00
44_N50_S1.0851.00
225_A268_E1.0811.00
15_Y21_M1.0801.00
58_K61_P1.0801.00
78_G259_G1.0781.00
198_T231_E1.0650.99
213_F247_T1.0650.99
44_N52_S1.0640.99
388_N391_D1.0600.99
224_I257_R1.0530.99
164_Q208_K1.0410.99
173_V176_I1.0410.99
179_V183_D1.0370.99
55_T58_K1.0350.99
62_I65_I1.0240.99
413_V426_I1.0230.99
315_I382_F1.0210.99
279_N282_E1.0130.99
90_K216_G1.0110.99
359_V374_I1.0100.99
175_S182_S1.0000.99
75_T256_N1.0000.99
245_H249_R0.9990.99
96_I111_V0.9980.99
326_M329_G0.9940.99
327_A359_V0.9900.99
212_I247_T0.9900.99
78_G276_E0.9890.99
290_A293_A0.9830.99
34_V51_H0.9810.99
406_V426_I0.9700.99
173_V179_V0.9670.99
177_Q182_S0.9620.99
239_Y254_V0.9610.99
422_K439_G0.9600.99
151_L162_A0.9590.99
348_L379_A0.9580.99
112_S172_V0.9580.99
229_L271_E0.9560.99
324_R356_Y0.9530.99
406_V413_V0.9500.99
11_Q36_E0.9470.99
17_S21_M0.9470.99
285_L307_I0.9460.99
9_I36_E0.9450.99
448_V451_A0.9420.99
314_L340_A0.9410.99
99_D239_Y0.9390.99
160_S167_N0.9350.99
176_I182_S0.9340.99
249_R282_E0.9230.99
62_I113_A0.9220.99
60_S259_G0.9160.98
42_P46_R0.9160.98
296_S377_S0.9150.98
89_V92_S0.9140.98
121_S149_H0.9140.98
176_I181_Q0.9140.98
391_D425_I0.9120.98
422_K441_E0.9100.98
292_S402_E0.9090.98
272_E275_T0.9070.98
31_N34_V0.9040.98
178_T181_Q0.9040.98
431_L435_T0.9010.98
25_P33_M0.8970.98
162_A166_M0.8970.98
295_S310_E0.8970.98
398_G402_E0.8960.98
80_F84_L0.8950.98
79_E259_G0.8950.98
280_P435_T0.8920.98
64_S67_T0.8830.98
156_M197_C0.8760.98
214_I221_E0.8760.98
228_R271_E0.8740.98
21_M25_P0.8730.98
214_I217_H0.8730.98
311_I359_V0.8730.98
409_I430_N0.8720.98
185_T192_S0.8700.98
176_I197_C0.8700.98
177_Q181_Q0.8690.98
448_V452_L0.8650.98
88_V213_F0.8650.98
409_I444_G0.8650.98
63_T67_T0.8640.98
257_R277_V0.8630.98
11_Q32_T0.8630.98
392_C416_A0.8620.98
180_Y183_D0.8610.98
156_M160_S0.8560.98
31_N35_E0.8560.98
55_T63_T0.8550.98
51_H54_Q0.8540.98
361_G398_G0.8540.98
330_I374_I0.8510.97
40_K50_S0.8470.97
57_Q61_P0.8460.97
295_S402_E0.8460.97
115_L170_F0.8410.97
287_E429_A0.8350.97
32_T52_S0.8310.97
172_V178_T0.8310.97
297_I310_E0.8260.97
131_V152_S0.8220.97
318_T321_G0.8210.97
393_F451_A0.8160.97
245_H248_F0.8150.97
13_C19_K0.8140.97
139_D144_N0.8130.97
391_D454_T0.8130.97
57_Q60_S0.8110.97
10_C14_G0.8110.97
117_G145_N0.8080.97
174_D180_Y0.8050.96
40_K43_A0.8050.96
234_V237_V0.8050.96
128_E131_V0.8040.96
247_T251_L0.8040.96
126_S152_S0.8020.96
288_R389_P0.7980.96
37_M51_H0.7940.96
175_S181_Q0.7920.96
134_T150_V0.7920.96
321_G354_D0.7910.96
237_V240_F0.7910.96
233_M278_L0.7850.96
330_I335_V0.7840.96
233_M250_I0.7830.96
256_N259_G0.7830.96
299_A392_C0.7820.96
60_S63_T0.7820.96
138_A165_E0.7810.96
43_A53_V0.7790.96
37_M40_K0.7790.96
298_T394_I0.7780.96
428_A450_E0.7770.96
119_S123_L0.7760.96
27_C30_W0.7760.96
7_K36_E0.7760.96
394_I424_M0.7750.96
300_S309_V0.7720.96
60_S65_I0.7690.95
46_R49_F0.7670.95
324_R333_N0.7670.95
159_I179_V0.7640.95
171_V178_T0.7620.95
226_G273_G0.7620.95
39_K44_N0.7610.95
235_D285_L0.7610.95
343_E350_L0.7580.95
41_A44_N0.7560.95
45_R51_H0.7550.95
335_V374_I0.7540.95
373_A393_F0.7520.95
408_R411_Q0.7500.95
44_N51_H0.7490.95
431_L434_W0.7490.95
44_N54_Q0.7450.95
398_G404_R0.7450.95
353_Q382_F0.7450.95
202_M234_V0.7420.94
184_I187_A0.7410.94
89_V217_H0.7410.94
127_G133_Q0.7390.94
184_I192_S0.7350.94
301_M411_Q0.7340.94
273_G280_P0.7330.94
269_M274_L0.7330.94
24_C226_G0.7310.94
197_C410_E0.7290.94
445_V454_T0.7290.94
24_C27_C0.7280.94
224_I253_A0.7270.94
240_F274_L0.7250.94
73_V96_I0.7250.94
63_T66_E0.7240.94
269_M273_G0.7220.94
84_L89_V0.7210.94
317_P352_N0.7210.94
49_F54_Q0.7210.94
56_V59_P0.7200.94
449_A453_R0.7200.94
338_L397_V0.7190.94
346_V379_A0.7190.94
428_A444_G0.7180.93
46_R54_Q0.7160.93
127_G178_T0.7080.93
402_E446_A0.7070.93
261_T267_F0.7060.93
405_R429_A0.7060.93
125_I159_I0.7050.93
67_T139_D0.7040.93
222_G265_G0.7030.93
301_M408_R0.7020.93
172_V182_S0.7010.93
112_S122_V0.7000.93
201_L212_I0.6980.93
214_I224_I0.6940.92
299_A424_M0.6930.92
89_V109_L0.6910.92
355_A378_I0.6910.92
46_R51_H0.6910.92
213_F250_I0.6900.92
379_A451_A0.6890.92
292_S400_T0.6870.92
79_E82_R0.6870.92
3_K7_K0.6870.92
260_S263_E0.6870.92
372_L448_V0.6870.92
121_S167_N0.6850.92
160_S164_Q0.6850.92
192_S195_R0.6840.92
251_L255_K0.6790.91
76_Q79_E0.6790.91
67_T74_K0.6780.91
146_P149_H0.6760.91
37_M41_A0.6710.91
55_T64_S0.6700.91
11_Q167_N0.6680.91
257_R273_G0.6670.91
326_M361_G0.6660.91
228_R232_H0.6630.90
72_R75_T0.6630.90
74_K77_L0.6630.90
16_E19_K0.6630.90
395_G427_P0.6630.90
417_A437_P0.6620.90
83_V265_G0.6610.90
252_R259_G0.6610.90
403_V448_V0.6600.90
391_D443_I0.6600.90
343_E354_D0.6590.90
153_E158_Y0.6590.90
297_I421_F0.6580.90
58_K63_T0.6530.90
367_E412_R0.6510.90
226_G270_R0.6510.90
190_S193_Q0.6510.90
171_V181_Q0.6510.90
85_G262_N0.6500.90
267_F273_G0.6500.90
55_T67_T0.6490.90
214_I254_V0.6470.89
156_M179_V0.6470.89
75_T259_G0.6450.89
75_T81_N0.6400.89
170_F213_F0.6400.89
372_L375_V0.6390.89
111_V173_V0.6390.89
7_K38_I0.6360.89
232_H235_D0.6350.89
323_P332_H0.6350.89
413_V434_W0.6330.88
56_V82_R0.6330.88
124_Y134_T0.6330.88
8_F15_Y0.6320.88
225_A228_R0.6320.88
213_F217_H0.6320.88
434_W442_V0.6310.88
121_S166_M0.6310.88
227_P230_L0.6300.88
205_A230_L0.6300.88
301_M415_E0.6280.88
370_I408_R0.6280.88
426_I434_W0.6270.88
69_E76_Q0.6250.88
226_G232_H0.6240.88
119_S169_S0.6240.88
62_I66_E0.6220.87
296_S373_A0.6210.87
32_T36_E0.6200.87
237_V243_E0.6170.87
264_M267_F0.6140.87
248_F418_K0.6130.87
102_I199_A0.6130.87
74_K78_G0.6100.86
58_K64_S0.6100.86
222_G231_E0.6100.86
66_E70_E0.6100.86
152_S156_M0.6090.86
59_P81_N0.6060.86
55_T60_S0.6050.86
69_E74_K0.6050.86
406_V430_N0.6040.86
269_M277_V0.6030.86
296_S376_I0.6010.86
300_S365_L0.6000.86
162_A165_E0.5980.85
67_T132_K0.5970.85
433_G436_K0.5970.85
155_D158_Y0.5960.85
331_D364_K0.5960.85
49_F52_S0.5960.85
127_G162_A0.5960.85
56_V67_T0.5960.85
71_P75_T0.5950.85
42_P45_R0.5950.85
390_A423_R0.5950.85
141_L144_N0.5940.85
274_L277_V0.5920.85
172_V181_Q0.5910.85
121_S188_P0.5910.85
214_I222_G0.5900.85
288_R419_L0.5890.85
79_E83_V0.5890.85
28_G31_N0.5880.84
227_P232_H0.5870.84
139_D143_I0.5870.84
222_G252_R0.5870.84
228_R235_D0.5860.84
160_S200_E0.5840.84
395_G403_V0.5840.84
95_L259_G0.5830.84
97_G185_T0.5830.84
397_V448_V0.5820.84
302_E305_R0.5810.84
4_T37_M0.5810.84
181_Q185_T0.5800.84
171_V183_D0.5800.84
59_P162_A0.5800.84
373_A451_A0.5780.83
254_V258_F0.5780.83
222_G232_H0.5780.83
310_E381_S0.5770.83
24_C28_G0.5770.83
232_H273_G0.5770.83
75_T88_V0.5770.83
257_R262_N0.5770.83
37_M43_A0.5760.83
270_R275_T0.5750.83
67_T70_E0.5720.83
213_F216_G0.5710.83
202_M206_K0.5700.83
333_N356_Y0.5700.83
14_G18_P0.5700.83
289_S400_T0.5700.83
299_A308_L0.5680.82
27_C35_E0.5670.82
112_S366_D0.5660.82
94_V170_F0.5650.82
361_G364_K0.5650.82
205_A212_I0.5650.82
174_D183_D0.5640.82
58_K65_I0.5610.82
32_T35_E0.5610.82
213_F254_V0.5610.82
337_L340_A0.5570.81
99_D104_K0.5570.81
173_V182_S0.5570.81
63_T76_Q0.5570.81
232_H314_L0.5560.81
60_S78_G0.5530.81
171_V182_S0.5530.81
185_T196_E0.5530.81
339_M350_L0.5530.81
410_E414_K0.5530.81
257_R269_M0.5520.81
316_S344_K0.5510.80
275_T435_T0.5500.80
67_T76_Q0.5500.80
8_F11_Q0.5490.80
88_V211_P0.5480.80
450_E454_T0.5460.80
285_L419_L0.5450.80
330_I357_L0.5440.80
173_V180_Y0.5440.80
394_I426_I0.5430.79
373_A415_E0.5430.79
348_L383_R0.5430.79
40_K54_Q0.5430.79
289_S292_S0.5420.79
45_R49_F0.5410.79
258_F262_N0.5400.79
345_R384_D0.5390.79
226_G276_E0.5390.79
425_I443_I0.5390.79
226_G235_D0.5390.79
27_C310_E0.5390.79
149_H162_A0.5380.79
137_R140_R0.5380.79
306_P394_I0.5370.79
136_L139_D0.5360.79
39_K45_R0.5350.78
201_L204_I0.5350.78
281_S285_L0.5350.78
434_W437_P0.5350.78
321_G351_Q0.5340.78
33_M36_E0.5330.78
153_E159_I0.5330.78
76_Q83_V0.5330.78
34_V38_I0.5320.78
196_E203_K0.5320.78
156_M201_L0.5320.78
376_I391_D0.5320.78
413_V437_P0.5320.78
275_T281_S0.5310.78
30_W34_V0.5310.78
344_K381_S0.5310.78
157_E181_Q0.5310.78
235_D286_E0.5300.78
63_T69_E0.5300.78
84_L87_G0.5290.78
60_S75_T0.5290.78
379_A383_R0.5290.78
320_F324_R0.5280.78
41_A46_R0.5280.78
225_A235_D0.5280.78
27_C31_N0.5270.77
299_A306_P0.5270.77
64_S69_E0.5260.77
226_G272_E0.5260.77
56_V60_S0.5260.77
296_S299_A0.5230.77
286_E405_R0.5230.77
309_V365_L0.5230.77
222_G257_R0.5230.77
243_E246_H0.5220.77
86_G89_V0.5220.77
56_V63_T0.5210.77
228_R268_E0.5210.77
402_E447_N0.5210.77
226_G231_E0.5210.77
78_G81_N0.5200.76
413_V417_A0.5200.76
7_K21_M0.5200.76
416_A424_M0.5200.76
233_M277_V0.5190.76
27_C303_G0.5190.76
228_R276_E0.5180.76
73_V76_Q0.5170.76
167_N208_K0.5160.76
67_T403_V0.5160.76
280_P432_D0.5150.76
112_S148_L0.5150.76
60_S67_T0.5150.76
249_R310_E0.5140.76
57_Q63_T0.5140.76
240_F243_E0.5140.76
3_K224_I0.5140.76
191_V194_V0.5130.76
214_I219_T0.5130.76
60_S66_E0.5130.76
55_T59_P0.5120.75
206_K222_G0.5120.75
223_S261_T0.5110.75
189_G195_R0.5110.75
257_R260_S0.5100.75
125_I151_L0.5090.75
4_T39_K0.5090.75
56_V65_I0.5080.75
131_V150_V0.5060.75
179_V185_T0.5060.75
321_G382_F0.5060.75
30_W257_R0.5060.75
227_P263_E0.5060.75
13_C20_W0.5050.74
112_S200_E0.5040.74
290_A446_A0.5040.74
225_A263_E0.5030.74
341_V397_V0.5030.74
36_E40_K0.5030.74
108_L213_F0.5020.74
220_K267_F0.5020.74
18_P23_K0.5010.74
417_A440_I0.5010.74
375_V452_L0.5010.74
199_A203_K0.5010.74
96_I213_F0.5010.74
226_G267_F0.5000.74
220_K273_G0.5000.74
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  
3m6aA 3 0.9454 100 0.558 Contact Map
3k1jA 4 0.8821 100 0.578 Contact Map
4fwgA 3 0.7991 100 0.66 Contact Map
1xhkA 2 0.3734 100 0.715 Contact Map
1z0wA 3 0.3821 100 0.717 Contact Map
3wu4A 3 0.3712 100 0.739 Contact Map
2x36A 3 0.3799 100 0.742 Contact Map
1n0wA 1 0.4083 99.9 0.837 Contact Map
2dr3A 3 0.4629 99.9 0.842 Contact Map
1tf7A 3 0.607 99.8 0.845 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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