GREMLIN Database
RARA - Replication-associated recombination protein A
UniProt: P0AAZ4 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12690
Length: 447 (381)
Sequences: 8517 (5773)
Seq/√Len: 295.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
32_Q169_D5.1611.00
175_T194_D3.4311.00
404_V408_P3.4011.00
171_E198_R3.3621.00
42_P46_E3.2241.00
166_S169_D3.2201.00
175_T197_R3.1841.00
32_Q172_Q3.1561.00
266_V298_I3.1211.00
176_Q180_D2.9641.00
171_E175_T2.8881.00
28_Y66_L2.8051.00
233_K236_L2.7051.00
319_D323_R2.6911.00
234_P238_T2.6551.00
28_Y69_V2.6311.00
315_I319_D2.4851.00
170_I211_A2.4281.00
173_V208_A2.3751.00
175_T179_E2.3721.00
165_L208_A2.3671.00
283_T361_R2.2511.00
87_G90_E2.1851.00
171_E197_R2.1801.00
193_P233_K2.1611.00
358_A362_E2.1561.00
299_A302_D2.1561.00
24_N27_Q2.1321.00
359_D363_R2.1221.00
193_P231_V2.1161.00
254_R257_D2.0991.00
28_Y35_L2.0341.00
174_L211_A2.0081.00
88_V121_S1.9471.00
199_A234_P1.9291.00
309_R312_Q1.9211.00
352_A356_A1.8961.00
68_E80_R1.8821.00
201_A211_A1.8751.00
89_K93_E1.8691.00
251_K254_R1.8651.00
77_D106_R1.8261.00
26_A42_P1.8231.00
190_I219_A1.8211.00
317_A336_A1.8181.00
299_A306_A1.8041.00
235_E239_E1.7971.00
302_D306_A1.7831.00
93_E97_R1.7641.00
204_V211_A1.7571.00
390_R395_E1.7041.00
173_V176_Q1.6981.00
279_A282_I1.6861.00
174_L197_R1.6811.00
192_L197_R1.6731.00
34_L160_Y1.6561.00
319_D322_T1.6501.00
14_Q18_A1.6381.00
195_E234_P1.6361.00
312_Q316_A1.6291.00
266_V269_S1.5971.00
353_F357_L1.5691.00
356_A360_A1.5691.00
318_W323_R1.5671.00
317_A321_F1.5631.00
377_T380_M1.5551.00
376_P380_M1.5471.00
247_R251_K1.5441.00
276_Y280_R1.5441.00
350_Y354_K1.5411.00
315_I318_W1.5301.00
167_T201_A1.5201.00
193_P196_T1.5141.00
307_D343_A1.5101.00
318_W322_T1.5031.00
115_V137_F1.5021.00
330_E334_A1.4981.00
167_T198_R1.4931.00
376_P379_L1.4911.00
170_I208_A1.4891.00
260_S263_H1.4811.00
55_L162_L1.4781.00
318_W325_G1.4761.00
167_T202_E1.4611.00
171_E201_A1.4561.00
261_A265_S1.4511.00
260_S264_K1.4491.00
301_E304_G1.4451.00
317_A325_G1.4381.00
27_Q176_Q1.4351.00
315_I320_C1.4291.00
178_M192_L1.4191.00
54_I157_A1.4121.00
309_R313_V1.4011.00
395_E400_A1.4001.00
170_I201_A1.3901.00
265_S269_S1.3871.00
235_E238_T1.3821.00
349_V356_A1.3771.00
91_I95_I1.3751.00
354_K357_L1.3681.00
77_D101_N1.3601.00
23_E27_Q1.3591.00
107_R136_T1.3571.00
318_W324_V1.3511.00
253_D257_D1.3461.00
266_V340_L1.3441.00
263_H269_S1.3361.00
349_V352_A1.3331.00
285_G288_P1.3211.00
352_A357_L1.3181.00
100_Q103_N1.3161.00
363_R366_Y1.3111.00
252_G255_F1.3041.00
93_E96_E1.3021.00
287_D290_Y1.3021.00
347_N351_T1.2991.00
300_S335_Q1.2971.00
374_N377_T1.2931.00
354_K358_A1.2911.00
66_L162_L1.2881.00
96_E99_R1.2871.00
301_E306_A1.2791.00
273_A277_W1.2721.00
321_F325_G1.2671.00
247_R250_N1.2541.00
74_A136_T1.2451.00
312_Q315_I1.2441.00
295_C337_I1.2421.00
177_A212_L1.2371.00
56_W161_L1.2351.00
299_A303_V1.2341.00
314_A320_C1.2331.00
315_I323_R1.2301.00
234_P237_L1.2291.00
316_A320_C1.2281.00
291_V295_C1.2201.00
191_V225_D1.2191.00
33_H163_K1.2191.00
314_A317_A1.2111.00
19_R181_K1.2011.00
355_A359_D1.2001.00
305_N335_Q1.2001.00
256_Y263_H1.1981.00
178_M215_L1.1951.00
203_L241_A1.1831.00
317_A320_C1.1781.00
321_F329_G1.1761.00
29_I173_V1.1741.00
242_G245_S1.1691.00
172_Q175_T1.1681.00
170_I174_L1.1661.00
396_A399_Y1.1601.00
91_I118_F1.1541.00
318_W321_F1.1461.00
168_E172_Q1.1411.00
198_R202_E1.1381.00
256_Y260_S1.1361.00
353_F356_A1.1321.00
356_A359_D1.1271.00
255_F258_L1.1201.00
289_L322_T1.1131.00
329_G332_A1.1131.00
357_L361_R1.1091.00
79_E97_R1.1071.00
20_M181_K1.1051.00
320_C325_G1.1011.00
257_D263_H1.0981.00
143_E147_F1.0971.00
23_E72_R1.0971.00
88_V119_N1.0871.00
111_F140_A1.0821.00
368_V373_R1.0751.00
380_M385_Y1.0681.00
395_E398_A1.0681.00
406_F410_I1.0651.00
263_H267_R1.0641.00
270_A273_A1.0631.00
347_N352_A1.0621.00
347_N393_H1.0571.00
395_E399_Y1.0571.00
282_I326_P1.0571.00
277_W282_I1.0541.00
257_D261_A1.0521.00
222_A236_L1.0481.00
389_Y393_H1.0461.00
14_Q19_R1.0411.00
264_K267_R1.0341.00
300_S303_V1.0331.00
99_R132_D1.0321.00
292_A296_L1.0311.00
88_V92_R1.0291.00
48_G74_A1.0271.00
368_V375_A1.0191.00
300_S304_G1.0191.00
96_E100_Q1.0101.00
197_R201_A1.0081.00
246_A249_D1.0061.00
392_A400_A0.9991.00
302_D305_N0.9941.00
97_R101_N0.9931.00
320_C324_V0.9921.00
314_A318_W0.9851.00
266_V271_P0.9851.00
336_A341_A0.9831.00
261_A264_K0.9781.00
297_A301_E0.9691.00
20_M180_D0.9671.00
351_T354_K0.9671.00
237_L242_G0.9661.00
345_K350_Y0.9651.00
112_V126_F0.9631.00
377_T383_M0.9621.00
260_S267_R0.9601.00
257_D260_S0.9601.00
321_F324_V0.9591.00
259_I263_H0.9591.00
293_R296_L0.9581.00
267_R270_A0.9531.00
351_T355_A0.9451.00
164_S205_N0.9431.00
95_I129_H0.9371.00
379_L385_Y0.9351.00
339_Y343_A0.9341.00
168_E171_E0.9331.00
78_V111_F0.9321.00
277_W281_I0.9321.00
315_I325_G0.9291.00
293_R297_A0.9281.00
374_N380_M0.9261.00
314_A321_F0.9251.00
36_A42_P0.9251.00
256_Y261_A0.9241.00
167_T171_E0.9221.00
236_L239_E0.9211.00
262_L266_V0.9181.00
355_A358_A0.9181.00
208_A211_A0.9161.00
369_P372_L0.9161.00
179_E192_L0.9121.00
200_I214_T0.9111.00
171_E194_D0.9101.00
330_E354_K0.9061.00
365_D372_L0.9051.00
301_E305_N0.9041.00
368_V376_P0.9011.00
396_A400_A0.8961.00
370_V373_R0.8961.00
43_R46_E0.8941.00
200_I211_A0.8891.00
285_G289_L0.8891.00
326_P329_G0.8861.00
372_L375_A0.8801.00
277_W280_R0.8801.00
199_A202_E0.8801.00
191_V231_V0.8781.00
291_V294_R0.8771.00
310_A313_V0.8761.00
249_D252_G0.8761.00
337_I341_A0.8751.00
237_L244_R0.8741.00
69_V73_Y0.8731.00
266_V295_C0.8671.00
88_V125_A0.8671.00
148_E250_N0.8671.00
283_T357_L0.8661.00
274_A337_I0.8651.00
262_L265_S0.8641.00
284_A288_P0.8611.00
369_P379_L0.8481.00
375_A380_M0.8461.00
377_T381_K0.8431.00
390_R400_A0.8421.00
391_Y394_D0.8401.00
360_A363_R0.8391.00
310_A318_W0.8381.00
263_H297_A0.8371.00
335_Q339_Y0.8371.00
357_L363_R0.8371.00
389_Y392_A0.8351.00
367_D370_V0.8351.00
322_T325_G0.8321.00
303_V307_D0.8311.00
292_A302_D0.8301.00
51_H136_T0.8301.00
293_R302_D0.8281.00
164_S207_D0.8261.00
378_K381_K0.8261.00
76_A107_R0.8251.00
237_L240_I0.8231.00
341_A344_P0.8211.00
298_I302_D0.8201.00
64_T113_D0.8151.00
278_Y337_I0.8131.00
369_P375_A0.8121.00
138_I143_E0.8101.00
253_D256_Y0.8061.00
56_W159_V0.8061.00
369_P383_M0.8061.00
68_E132_D0.8051.00
320_C323_R0.8051.00
265_S268_G0.8031.00
254_R258_L0.8021.00
347_N350_Y0.7920.99
274_A281_I0.7880.99
286_G290_Y0.7880.99
296_L323_R0.7870.99
177_A181_K0.7860.99
40_P160_Y0.7860.99
283_T288_P0.7850.99
356_A363_R0.7850.99
79_E108_T0.7820.99
339_Y344_P0.7820.99
302_D310_A0.7800.99
214_T241_A0.7770.99
336_A340_L0.7730.99
174_L201_A0.7720.99
266_V303_V0.7680.99
177_A180_D0.7660.99
53_M160_Y0.7610.99
314_A324_V0.7600.99
268_G405_Y0.7600.99
296_L315_I0.7590.99
271_P274_A0.7570.99
70_I138_I0.7560.99
255_F263_H0.7500.99
334_A338_V0.7460.99
311_M314_A0.7450.99
328_E331_R0.7430.99
298_I340_L0.7390.99
353_F363_R0.7380.99
296_L299_A0.7340.99
390_R393_H0.7330.99
392_A405_Y0.7320.99
314_A325_G0.7310.99
292_A295_C0.7300.99
85_T129_H0.7300.99
81_I95_I0.7290.99
35_L42_P0.7290.99
194_D198_R0.7280.99
320_C332_A0.7270.99
61_T162_L0.7270.99
311_M317_A0.7250.99
372_L379_L0.7250.99
381_K386_G0.7240.99
326_P331_R0.7240.99
332_A335_Q0.7230.99
256_Y266_V0.7220.99
338_V342_C0.7220.99
137_F145_P0.7190.99
117_R124_D0.7180.99
406_F409_E0.7170.99
86_S90_E0.7160.99
384_G389_Y0.7150.99
303_V340_L0.7130.99
292_A299_A0.7130.99
315_I322_T0.7110.99
275_L352_A0.7100.99
142_T145_P0.7070.99
317_A324_V0.7060.99
324_V332_A0.7060.99
275_L279_A0.7050.99
266_V270_A0.7050.99
196_T234_P0.7040.99
305_N313_V0.7040.99
366_Y409_E0.7030.99
303_V306_A0.7020.99
264_K269_S0.7010.99
274_A277_W0.6950.99
295_C298_I0.6940.99
58_P61_T0.6920.99
98_A102_R0.6920.99
384_G387_Q0.6920.99
218_M240_I0.6910.99
333_I340_L0.6890.99
255_F260_S0.6880.99
100_Q104_A0.6880.99
403_E406_F0.6880.99
169_D172_Q0.6850.98
388_E393_H0.6850.98
350_Y357_L0.6830.98
255_F259_I0.6820.98
298_I303_V0.6810.98
313_V320_C0.6810.98
402_G408_P0.6810.98
329_G336_A0.6810.98
380_M383_M0.6810.98
263_H268_G0.6800.98
404_V409_E0.6780.98
294_R297_A0.6750.98
241_A245_S0.6740.98
399_Y402_G0.6730.98
295_C299_A0.6700.98
263_H266_V0.6680.98
129_H132_D0.6650.98
264_K268_G0.6640.98
86_S118_F0.6620.98
304_G308_P0.6620.98
248_F251_K0.6610.98
348_A352_A0.6590.98
384_G388_E0.6580.98
69_V72_R0.6560.98
365_D368_V0.6550.98
319_D325_G0.6550.98
300_S306_A0.6540.98
353_F359_D0.6540.98
79_E101_N0.6540.98
272_D276_Y0.6530.98
349_V353_F0.6520.98
389_Y394_D0.6520.98
304_G307_D0.6510.98
20_M177_A0.6490.98
333_I337_I0.6470.98
79_E94_A0.6460.98
398_A402_G0.6410.98
199_A237_L0.6410.98
334_A337_I0.6400.98
95_I135_I0.6390.98
371_H376_P0.6380.98
335_Q341_A0.6360.98
379_L383_M0.6330.97
396_A406_F0.6320.97
265_S271_P0.6280.97
232_L237_L0.6260.97
377_T385_Y0.6260.97
288_P291_V0.6250.97
259_I290_Y0.6240.97
165_L169_D0.6210.97
256_Y267_R0.6210.97
367_D373_R0.6200.97
138_I145_P0.6200.97
337_I343_A0.6170.97
370_V388_E0.6140.97
377_T387_Q0.6140.97
144_N147_F0.6140.97
204_V207_D0.6120.97
240_I244_R0.6120.97
331_R350_Y0.6120.97
315_I324_V0.6110.97
369_P373_R0.6110.97
336_A343_A0.6090.97
327_A331_R0.6090.97
281_I286_G0.6080.97
262_L269_S0.6080.97
298_I301_E0.6060.97
283_T287_D0.6050.97
372_L376_P0.6030.97
329_G344_P0.5990.96
152_A156_R0.5990.96
353_F360_A0.5980.96
87_G91_I0.5970.96
92_R96_E0.5970.96
314_A322_T0.5960.96
236_L240_I0.5950.96
248_F281_I0.5920.96
295_C303_V0.5920.96
271_P275_L0.5910.96
172_Q176_Q0.5910.96
218_M222_A0.5900.96
337_I342_C0.5900.96
86_S95_I0.5900.96
130_I157_A0.5890.96
310_A325_G0.5880.96
297_A302_D0.5870.96
366_Y370_V0.5850.96
258_L262_L0.5850.96
55_L66_L0.5830.96
271_P279_A0.5830.96
255_F266_V0.5820.96
334_A341_A0.5820.96
81_I112_V0.5810.96
407_P410_I0.5800.96
225_D236_L0.5760.96
326_P333_I0.5760.96
211_A215_L0.5750.96
95_I99_R0.5740.96
17_A68_E0.5740.96
296_L306_A0.5740.96
386_G393_H0.5710.95
310_A314_A0.5710.95
42_P45_I0.5710.95
234_P240_I0.5690.95
246_A258_L0.5680.95
306_A309_R0.5680.95
268_G271_P0.5670.95
238_T242_G0.5670.95
383_M387_Q0.5660.95
200_I237_L0.5650.95
252_G258_L0.5650.95
237_L241_A0.5650.95
286_G289_L0.5640.95
86_S122_Q0.5630.95
45_I70_I0.5620.95
289_L318_W0.5620.95
348_A351_T0.5610.95
174_L215_L0.5610.95
295_C302_D0.5600.95
130_I149_L0.5580.95
293_R299_A0.5560.95
294_R298_I0.5560.95
280_R283_T0.5550.95
326_P332_A0.5530.95
395_E403_E0.5530.95
400_A403_E0.5530.95
306_A310_A0.5520.94
368_V371_H0.5520.94
394_D397_N0.5510.94
346_S349_V0.5480.94
336_A339_Y0.5450.94
308_P312_Q0.5440.94
356_A361_R0.5420.94
276_Y279_A0.5420.94
376_P383_M0.5410.94
197_R211_A0.5410.94
258_L261_A0.5400.94
261_A271_P0.5400.94
275_L282_I0.5390.94
65_T69_V0.5380.94
119_N122_Q0.5380.94
116_H142_T0.5380.94
305_N338_V0.5380.94
404_V407_P0.5370.94
94_A98_A0.5370.94
258_L268_G0.5350.94
346_S356_A0.5350.94
248_F255_F0.5340.93
246_A251_K0.5300.93
402_G406_F0.5290.93
256_Y265_S0.5290.93
128_P132_D0.5290.93
372_L380_M0.5280.93
199_A238_T0.5280.93
310_A324_V0.5280.93
85_T125_A0.5270.93
262_L337_I0.5270.93
352_A363_R0.5260.93
310_A317_A0.5260.93
81_I91_I0.5260.93
231_V236_L0.5250.93
284_A289_L0.5240.93
333_I341_A0.5240.93
219_A222_A0.5230.93
279_A356_A0.5220.93
370_V378_K0.5210.93
216_E220_D0.5210.93
299_A305_N0.5210.93
248_F258_L0.5200.93
367_D371_H0.5190.92
393_H398_A0.5190.92
299_A307_D0.5190.92
375_A381_K0.5180.92
303_V310_A0.5150.92
281_I285_G0.5140.92
346_S350_Y0.5140.92
260_S266_V0.5120.92
84_V125_A0.5120.92
392_A395_E0.5120.92
338_V341_A0.5120.92
279_A360_A0.5080.92
32_Q168_E0.5080.92
346_S353_F0.5080.92
269_S272_D0.5070.92
335_Q338_V0.5060.92
136_T143_E0.5050.91
99_R129_H0.5040.91
111_F122_Q0.5040.91
44_A53_M0.5030.91
282_I285_G0.5030.91
58_P207_D0.5030.91
101_N106_R0.5020.91
355_A360_A0.5020.91
196_T237_L0.5000.91
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  
3pvsA 4 0.9709 100 0.386 Contact Map
4rh7A 1 0.9195 100 0.393 Contact Map
3vkgA 2 0.8859 100 0.47 Contact Map
4akgA 2 0.6264 100 0.556 Contact Map
1sxjD 1 0.6801 100 0.579 Contact Map
1iqpA 5 0.698 100 0.602 Contact Map
2chqA 3 0.6711 100 0.604 Contact Map
1sxjC 1 0.689 100 0.61 Contact Map
1sxjE 1 0.6577 100 0.623 Contact Map
3u61B 3 0.7002 100 0.636 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.

Page generated in 0.0119 seconds.