GREMLIN Database
RADA - DNA repair protein RadA
UniProt: P24554 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11296
Length: 460 (445)
Sequences: 6599 (3683)
Seq/√Len: 174.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
431_A448_K6.8521.00
426_R443_Q4.5811.00
431_A434_V4.3971.00
409_V412_G4.3801.00
426_R445_F4.0401.00
393_D425_R3.9891.00
316_A380_A3.9051.00
209_K230_P3.7701.00
445_F456_V3.7411.00
64_Q68_D3.6401.00
416_I427_A3.3571.00
420_A441_G3.1771.00
206_R210_T3.1061.00
434_V446_G3.0731.00
166_A174_M3.0491.00
69_I117_C3.0211.00
378_L400_V2.9361.00
429_V446_G2.7271.00
375_L453_A2.5571.00
412_G429_V2.5521.00
416_I442_M2.5051.00
235_H239_C2.4911.00
448_K452_D2.4141.00
296_S387_D2.4091.00
13_E30_A2.4011.00
213_V228_A2.3951.00
229_G232_V2.3921.00
44_M47_R2.3331.00
429_V444_I2.3201.00
428_I456_V2.2921.00
379_L390_L2.2861.00
447_V453_A2.2861.00
273_T276_G2.2801.00
299_S396_V2.2701.00
379_L457_F2.2171.00
416_I444_I2.2031.00
428_I447_V2.1791.00
318_V384_S2.1431.00
129_T137_V2.1361.00
379_L453_A2.1331.00
406_I447_V2.1091.00
12_N35_T2.1081.00
379_L396_V2.0981.00
378_L450_L2.0951.00
394_L426_R2.0731.00
263_A279_E2.0701.00
452_D455_S2.0471.00
426_R456_V2.0391.00
348_H451_S2.0321.00
395_V424_F2.0231.00
301_M376_A1.9721.00
396_V428_I1.9171.00
447_V452_D1.9161.00
382_V454_L1.9081.00
428_I453_A1.8891.00
24_Q29_H1.8851.00
341_L378_L1.8531.00
78_S85_D1.8531.00
38_R43_P1.8341.00
22_Q34_I1.8291.00
30_A33_T1.8281.00
112_L218_V1.7951.00
375_L406_I1.7911.00
201_A238_D1.7891.00
220_H254_L1.7801.00
36_E40_A1.7721.00
332_G335_Q1.7701.00
18_Y34_I1.7621.00
124_K172_K1.7591.00
16_A26_S1.7441.00
323_M357_D1.7411.00
206_R209_K1.7101.00
97_A205_T1.7041.00
314_I376_A1.6971.00
8_A17_D1.6971.00
70_S117_C1.6841.00
152_N169_E1.6701.00
397_F412_G1.6681.00
182_M193_S1.6431.00
65_K68_D1.6271.00
202_A437_K1.6221.00
205_T234_E1.6211.00
216_V254_L1.6201.00
136_Q153_M1.6191.00
391_P426_R1.6091.00
260_R264_V1.6021.00
16_A34_I1.5971.00
18_Y26_S1.5801.00
239_C284_S1.5781.00
335_Q339_A1.5751.00
235_H274_E1.5731.00
391_P457_F1.5591.00
188_Q193_S1.5511.00
427_A442_M1.5451.00
299_S390_L1.5451.00
166_A207_F1.5431.00
138_A142_H1.5401.00
449_K452_D1.5341.00
342_L358_V1.5261.00
353_M385_L1.5161.00
10_V17_D1.5121.00
311_L422_H1.5101.00
419_A422_H1.5061.00
227_L257_H1.4981.00
207_F213_V1.4921.00
235_H277_L1.4841.00
235_H284_S1.4801.00
123_M172_K1.4741.00
174_M215_I1.4741.00
65_K69_I1.4731.00
395_V427_A1.4731.00
164_L167_E1.4541.00
276_G280_V1.4531.00
412_G416_I1.4511.00
43_P47_R1.4391.00
360_V377_L1.4381.00
185_A188_Q1.4301.00
80_G85_D1.4291.00
181_V184_M1.4201.00
62_K65_K1.4131.00
228_A256_S1.4061.00
158_S185_A1.4001.00
62_K66_L1.3931.00
326_P338_L1.3871.00
111_L196_Q1.3611.00
11_C18_Y1.3531.00
256_S272_M1.3481.00
252_R255_R1.3321.00
397_F409_V1.3241.00
84_F87_V1.3111.00
16_A27_A1.3041.00
260_R270_F1.3011.00
287_F432_A1.2991.00
316_A384_S1.2951.00
344_V348_H1.2921.00
232_V277_L1.2851.00
338_L360_V1.2851.00
188_Q195_A1.2811.00
322_M354_A1.2811.00
205_T230_P1.2721.00
259_N280_V1.2671.00
209_K233_L1.2651.00
83_E86_R1.2601.00
230_P234_E1.2511.00
375_L447_V1.2501.00
319_D343_A1.2491.00
416_I429_V1.2401.00
42_S45_V1.2371.00
294_V392_Q1.2331.00
379_L454_L1.2321.00
439_P444_I1.2231.00
229_G271_A1.2211.00
74_L135_Q1.2181.00
228_A277_L1.2111.00
124_K150_N1.2101.00
344_V450_L1.1931.00
234_E238_D1.1921.00
45_V48_N1.1901.00
401_G405_E1.1891.00
345_L382_V1.1871.00
231_K274_E1.1791.00
300_V311_L1.1791.00
296_S389_P1.1741.00
79_T259_N1.1721.00
16_A22_Q1.1711.00
83_E87_V1.1711.00
84_F88_L1.1701.00
76_R255_R1.1671.00
319_D346_H1.1661.00
216_V250_R1.1631.00
223_K226_S1.1501.00
236_C256_S1.1501.00
213_V233_L1.1451.00
231_K234_E1.1421.00
207_F211_R1.1411.00
318_V356_Q1.1361.00
213_V253_T1.1261.00
63_V66_L1.1231.00
18_Y22_Q1.1181.00
320_H356_Q1.1141.00
303_V312_V1.1051.00
32_N35_T1.1041.00
15_G18_Y1.1011.00
362_V377_L1.0961.00
263_A280_V1.0941.00
163_C170_Q1.0891.00
82_K262_G1.0871.00
227_L260_R1.0861.00
179_I200_T1.0761.00
409_V429_V1.0721.00
232_V274_E1.0701.00
330_A362_V1.0631.00
215_I250_R1.0601.00
40_A45_V1.0591.00
116_L175_V1.0581.00
100_I115_T1.0561.00
325_N339_A1.0561.00
94_P219_G1.0521.00
80_G83_E1.0511.00
38_R41_A1.0410.99
67_S149_D1.0400.99
391_P394_L1.0390.99
39_L48_N1.0380.99
22_Q26_S1.0340.99
293_E296_S1.0300.99
295_T405_E1.0280.99
10_V37_V1.0280.99
299_S380_A1.0250.99
317_L343_A1.0220.99
248_D252_R1.0210.99
318_V385_L1.0210.99
269_V276_G1.0210.99
288_L310_L1.0180.99
167_E211_R1.0120.99
298_S313_E1.0040.99
205_T237_I1.0010.99
182_M188_Q1.0010.99
276_G279_E1.0000.99
425_R441_G1.0000.99
329_V332_G0.9970.99
409_V416_I0.9960.99
66_L69_I0.9940.99
242_L257_H0.9820.99
159_I163_C0.9800.99
129_T155_S0.9800.99
189_S192_G0.9740.99
229_G273_T0.9710.99
394_L456_V0.9710.99
44_M48_N0.9690.99
412_G433_N0.9660.99
201_A234_E0.9630.99
124_K152_N0.9620.99
163_C207_F0.9610.99
275_Q278_R0.9590.99
43_P46_A0.9540.99
412_G446_G0.9530.99
59_G62_K0.9530.99
12_N37_V0.9500.99
193_S196_Q0.9500.99
154_L165_I0.9410.99
93_V96_S0.9400.99
66_L117_C0.9370.99
189_S193_S0.9330.99
80_G87_V0.9260.99
41_A44_M0.9240.99
252_R285_A0.9240.99
11_C15_G0.9240.99
131_E165_I0.9210.99
425_R443_Q0.9200.99
302_V395_V0.9160.99
358_V381_M0.9160.99
103_N242_L0.9110.99
12_N33_T0.9070.99
141_A168_E0.9040.99
314_I362_V0.9030.99
300_V313_E0.8970.98
351_L382_V0.8960.98
302_V427_A0.8940.98
142_H147_P0.8900.98
64_Q262_G0.8820.98
321_S326_P0.8810.98
35_T38_R0.8750.98
394_L445_F0.8750.98
187_V195_A0.8740.98
26_S34_I0.8730.98
394_L428_I0.8700.98
217_M224_D0.8700.98
394_L457_F0.8670.98
396_V453_A0.8640.98
333_L377_L0.8640.98
82_K279_E0.8630.98
68_D71_L0.8610.98
450_L453_A0.8600.98
83_E262_G0.8570.98
159_I200_T0.8570.98
451_S455_S0.8560.98
32_N36_E0.8550.98
324_A357_D0.8530.98
450_L454_L0.8510.98
420_A438_A0.8500.98
43_P48_N0.8460.98
8_A37_V0.8450.98
259_N262_G0.8400.98
321_S324_A0.8350.98
397_F427_A0.8320.97
260_R280_V0.8320.97
395_V419_A0.8310.97
40_A46_A0.8260.97
240_S243_L0.8220.97
282_N285_A0.8200.97
298_S405_E0.8190.97
401_G407_R0.8190.97
92_V216_V0.8180.97
38_R42_S0.8180.97
237_I240_S0.8150.97
93_V220_H0.8130.97
165_I169_E0.8130.97
364_G401_G0.8110.97
327_R359_F0.8080.97
42_S47_R0.8060.97
187_V190_S0.8050.97
28_C31_W0.8050.97
263_A266_E0.8030.97
327_R336_N0.8000.97
408_P432_A0.7990.97
87_V268_G0.7990.97
248_D251_F0.7990.97
119_L173_L0.7990.97
188_Q194_V0.7970.97
338_L377_L0.7950.97
4_A8_A0.7920.97
333_L338_L0.7850.96
301_M397_F0.7840.96
121_Q148_T0.7830.96
376_A453_A0.7830.96
291_G392_Q0.7830.96
199_E206_R0.7820.96
33_T36_E0.7810.96
156_E161_Q0.7790.96
431_A452_D0.7790.96
346_H353_M0.7730.96
38_R44_M0.7710.96
14_C20_R0.7710.96
405_E448_K0.7690.96
165_I168_E0.7660.96
235_H238_D0.7660.96
192_G196_Q0.7640.96
235_H278_R0.7610.96
217_M257_H0.7600.96
238_D288_L0.7600.96
254_L258_K0.7590.96
131_E134_L0.7590.96
169_E172_K0.7570.96
189_S195_A0.7570.96
39_L42_S0.7550.96
71_L142_H0.7530.96
25_C28_C0.7530.96
155_S159_I0.7520.95
34_I37_V0.7520.95
199_E204_L0.7520.95
231_K235_H0.7510.95
130_G165_I0.7500.95
411_S414_E0.7500.95
356_Q385_L0.7490.95
163_C167_E0.7490.95
255_R262_G0.7480.95
158_S161_Q0.7470.95
81_F84_F0.7470.95
61_A65_K0.7440.95
304_W411_S0.7410.95
304_W414_E0.7410.95
118_K121_Q0.7390.95
79_T262_G0.7320.95
41_A48_N0.7310.95
250_R254_L0.7300.95
47_R58_A0.7290.95
61_A64_Q0.7280.95
236_C253_T0.7280.95
320_H355_D0.7260.95
382_V453_A0.7260.95
188_Q192_G0.7260.95
115_T176_I0.7230.94
228_A232_V0.7190.94
229_G276_G0.7160.94
8_A39_L0.7120.94
420_A439_P0.7120.94
190_S194_V0.7120.94
159_I182_M0.7100.94
376_A396_V0.7090.94
187_V194_V0.7090.94
151_L159_I0.7090.94
431_A446_G0.7060.94
116_L125_T0.7060.94
73_E78_S0.7020.94
145_G149_D0.7020.94
134_L155_S0.7010.93
31_W34_I0.7000.93
217_M220_H0.7000.93
31_W35_T0.7000.93
398_G430_P0.6990.93
186_D189_S0.6990.93
341_L400_V0.6980.93
93_V113_L0.6970.93
228_A233_L0.6960.93
184_M188_Q0.6950.93
146_L149_D0.6930.93
406_I450_L0.6910.93
200_T413_Q0.6900.93
346_H357_D0.6900.93
261_F265_N0.6890.93
304_W418_E0.6880.93
228_A260_R0.6870.93
66_L70_S0.6860.93
370_E415_R0.6830.93
37_V41_A0.6810.92
290_R432_A0.6810.92
162_I182_M0.6810.92
71_L78_S0.6810.92
38_R46_A0.6790.92
349_G382_V0.6750.92
12_N170_Q0.6740.92
140_R143_R0.6740.92
129_T132_E0.6740.92
262_G266_E0.6740.92
217_M227_L0.6730.92
88_L93_V0.6720.92
251_F421_K0.6710.92
15_G19_P0.6690.92
17_D20_R0.6660.92
375_L450_L0.6650.92
373_A411_S0.6640.91
77_F100_I0.6630.91
143_R149_D0.6620.91
71_L80_G0.6620.91
230_P233_L0.6600.91
82_K85_D0.6560.91
299_S379_L0.6560.91
26_S29_H0.6510.91
78_S81_F0.6480.90
249_S252_R0.6480.90
295_T403_A0.6470.90
229_G275_Q0.6460.90
257_H261_F0.6460.90
300_V424_F0.6450.90
261_F264_V0.6450.90
73_E80_G0.6440.90
216_V253_T0.6440.90
39_L45_V0.6440.90
225_G268_G0.6430.90
299_S376_A0.6430.90
41_A47_R0.6410.90
188_Q191_P0.6410.90
123_M130_G0.6400.90
188_Q199_E0.6390.90
137_V153_M0.6390.90
217_M225_G0.6370.90
340_I343_A0.6370.90
6_K9_F0.6370.90
60_V63_V0.6340.90
323_M326_P0.6340.90
186_D192_G0.6330.89
329_V364_G0.6320.89
238_D289_S0.6320.89
189_S194_V0.6320.89
272_M277_L0.6320.89
145_G148_T0.6280.89
240_S245_G0.6270.89
159_I166_A0.6270.89
89_G265_N0.6270.89
205_T209_K0.6250.89
9_F16_A0.6250.89
67_S71_L0.6240.89
63_V85_D0.6220.89
5_P38_R0.6220.89
127_Y137_V0.6220.89
81_F87_V0.6210.89
75_P79_T0.6210.89
159_I164_L0.6200.88
227_L261_F0.6200.88
229_G274_E0.6190.88
393_D426_R0.6190.88
334_E367_K0.6170.88
375_L379_L0.6170.88
198_R204_L0.6170.88
229_G235_H0.6160.88
376_A418_E0.6150.88
25_C29_H0.6150.88
28_C32_N0.6120.88
177_D180_Q0.6110.88
7_R10_V0.6100.88
64_Q67_S0.6100.88
453_A457_F0.6100.88
64_Q82_K0.6080.88
70_S74_L0.6070.87
64_Q69_I0.6070.87
246_D249_S0.6050.87
35_T39_L0.6050.87
204_L215_I0.6010.87
130_G181_V0.6000.87
28_C313_E0.6000.87
143_R147_P0.6000.87
101_G182_M0.6000.87
260_R263_A0.5990.87
17_D27_A0.5990.87
260_R276_G0.5990.87
130_G136_Q0.5980.87
113_L157_T0.5970.87
302_V311_L0.5970.87
92_V214_A0.5960.86
137_V143_R0.5960.86
216_V257_H0.5930.86
197_V200_T0.5920.86
71_L74_L0.5910.86
348_H387_D0.5880.86
11_C14_C0.5880.86
312_V368_V0.5870.86
101_G181_V0.5860.86
139_M142_H0.5840.85
91_G95_G0.5840.85
113_L117_C0.5840.85
428_I445_F0.5830.85
25_C229_G0.5830.85
161_Q164_L0.5820.85
142_H149_D0.5820.85
192_G195_A0.5810.85
409_V433_N0.5790.85
68_D73_E0.5780.85
78_S82_K0.5770.85
208_A215_I0.5770.85
227_L256_S0.5760.85
90_G93_V0.5760.85
67_S80_G0.5760.85
176_I182_M0.5760.85
60_V69_I0.5750.84
149_D152_N0.5740.84
151_L164_L0.5740.84
181_V188_Q0.5730.84
219_G306_G0.5730.84
132_E139_M0.5730.84
236_C281_S0.5720.84
397_F429_V0.5710.84
175_V180_Q0.5690.84
133_S153_M0.5680.84
398_G406_I0.5680.84
124_K170_Q0.5680.84
90_G317_L0.5670.84
375_L378_L0.5670.84
9_F12_N0.5660.84
85_D89_G0.5650.83
216_V219_G0.5640.83
237_I241_V0.5640.83
447_V456_V0.5640.83
267_L270_F0.5640.83
129_T138_A0.5610.83
17_D21_W0.5610.83
38_R47_R0.5610.83
390_L457_F0.5600.83
270_F276_G0.5590.83
225_G234_E0.5590.83
74_L77_F0.5590.83
303_V368_V0.5580.83
214_A218_V0.5570.83
338_L376_A0.5570.83
8_A22_Q0.5570.83
151_L154_L0.5570.83
333_L360_V0.5570.83
170_Q211_R0.5560.82
260_R265_N0.5560.82
67_S73_E0.5560.82
309_P397_F0.5550.82
313_E384_S0.5550.82
136_Q143_R0.5540.82
199_E203_Y0.5530.82
323_M346_H0.5530.82
38_R48_N0.5510.82
228_A276_G0.5500.82
99_L262_G0.5500.82
416_I420_A0.5480.82
429_V434_V0.5480.82
326_P335_Q0.5460.81
136_Q140_R0.5440.81
419_A427_A0.5430.81
159_I162_I0.5430.81
338_L342_L0.5430.81
243_L277_L0.5420.81
19_P24_Q0.5420.81
253_T258_K0.5420.81
182_M195_A0.5410.81
235_H317_L0.5410.81
103_N108_K0.5410.81
406_I453_A0.5400.81
37_V40_A0.5400.81
117_C120_A0.5390.81
299_S302_V0.5380.80
217_M228_A0.5380.80
134_L137_V0.5380.80
124_K169_E0.5370.80
283_P435_P0.5360.80
72_E78_S0.5360.80
276_G283_P0.5350.80
160_E184_M0.5350.80
127_Y131_E0.5350.80
72_E206_R0.5350.80
232_V272_M0.5350.80
33_T37_V0.5340.80
128_V162_I0.5340.80
128_V143_R0.5340.80
189_S196_Q0.5340.80
29_H32_N0.5340.80
324_A354_A0.5330.80
132_E136_Q0.5330.80
12_N24_Q0.5330.80
8_A12_N0.5320.80
229_G279_E0.5320.80
16_A19_P0.5320.80
60_V64_Q0.5320.80
230_P266_E0.5320.80
353_M381_M0.5310.80
273_T278_R0.5310.80
433_N446_G0.5310.80
138_A143_R0.5300.79
173_L216_V0.5300.79
100_I112_L0.5300.79
319_D347_R0.5290.79
60_V86_R0.5280.79
40_A47_R0.5280.79
199_E207_F0.5280.79
155_S158_S0.5280.79
67_S70_S0.5270.79
144_L147_P0.5260.79
14_C21_W0.5260.79
132_E140_R0.5260.79
302_V309_P0.5250.79
143_R146_L0.5250.79
264_V270_F0.5240.79
199_E205_T0.5230.79
225_G269_V0.5230.79
20_R26_S0.5220.78
5_P40_A0.5210.78
154_L166_A0.5210.78
375_L400_V0.5210.78
290_R298_S0.5190.78
184_M187_V0.5190.78
180_Q192_G0.5190.78
28_C36_E0.5190.78
39_L43_P0.5190.78
5_P8_A0.5180.78
428_I457_F0.5180.78
81_F86_R0.5180.78
226_S264_V0.5180.78
163_C203_Y0.5180.78
124_K191_P0.5170.78
89_G93_V0.5170.78
225_G260_R0.5170.78
5_P37_V0.5170.78
289_S408_P0.5160.78
31_W38_R0.5150.77
127_Y132_E0.5140.77
79_T85_D0.5130.77
235_H276_G0.5130.77
231_K271_A0.5130.77
344_V400_V0.5120.77
177_D182_M0.5120.77
347_R384_S0.5120.77
30_A34_I0.5110.77
159_I204_L0.5110.77
8_A18_Y0.5100.77
231_K238_D0.5100.77
76_R79_T0.5100.77
336_N359_F0.5090.77
288_L422_H0.5090.77
204_L208_A0.5080.77
223_K276_G0.5080.77
98_I173_L0.5060.76
373_A397_F0.5060.76
365_G399_E0.5050.76
397_F410_P0.5050.76
22_Q373_A0.5040.76
200_T204_L0.5020.76
179_I182_M0.5020.76
130_G137_V0.5020.76
190_S195_A0.5010.76
112_L216_V0.5010.76
231_K279_E0.5010.76
382_V450_L0.5010.76
30_A38_R0.5000.75
198_R205_T0.5000.75
352_Q355_D0.5000.75
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  
3k1jA 4 0.8804 100 0.579 Contact Map
3m6aA 3 0.9457 100 0.582 Contact Map
4fwgA 3 0.7957 100 0.652 Contact Map
1xhkA 2 0.3696 100 0.716 Contact Map
1z0wA 3 0.3783 100 0.723 Contact Map
3wu4A 3 0.3674 100 0.74 Contact Map
2x36A 3 0.3761 100 0.743 Contact Map
1n0wA 1 0.4043 99.8 0.843 Contact Map
2dr3A 3 0.4587 99.8 0.849 Contact Map
2cvhA 1 0.4413 99.8 0.85 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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