GREMLIN Database
RAD50 - DNA double-strand break repair Rad50 ATPase
UniProt: Q9HRW3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 883 (833)
Sequences: 7030 (6753)
Seq/√Len: 234.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
7_S18_A3.0301.00
5_R18_A2.9211.00
7_S71_D2.5431.00
749_L838_S2.4171.00
445_A448_L2.3571.00
179_E183_S2.3021.00
697_R701_E2.2961.00
462_E465_P2.2561.00
434_D437_S2.2311.00
269_E273_E2.2231.00
548_D552_E2.2021.00
4_T75_E2.1381.00
581_Q585_K2.1121.00
71_D84_H2.1041.00
589_D592_A2.1011.00
539_A543_R2.0991.00
435_R439_A2.0981.00
437_S441_R2.0641.00
626_R630_S2.0611.00
396_A400_F2.0491.00
635_R638_T2.0371.00
323_R327_A2.0321.00
474_R478_A2.0231.00
207_R210_S1.9921.00
400_F404_P1.9901.00
402_D406_A1.9811.00
264_R268_A1.9541.00
117_H120_G1.9371.00
278_A282_S1.9301.00
210_S214_A1.9261.00
480_L484_L1.9231.00
553_A557_R1.9201.00
506_A510_R1.9201.00
361_L364_E1.9181.00
513_D517_Q1.9051.00
624_Q628_R1.9011.00
336_A340_L1.8971.00
353_T357_R1.8941.00
259_T262_D1.8851.00
375_A379_R1.8681.00
619_A623_E1.8561.00
576_A580_D1.8521.00
3_F72_L1.8511.00
477_V481_D1.8501.00
322_Q325_A1.8491.00
573_T576_A1.8421.00
5_R73_H1.8411.00
270_A273_E1.8391.00
235_T238_D1.8341.00
679_L683_I1.8261.00
379_R383_A1.8191.00
476_R479_E1.8141.00
361_L365_A1.8121.00
510_R513_D1.8121.00
487_V491_L1.8071.00
585_K589_D1.8041.00
340_L343_Q1.8031.00
420_E423_E1.8001.00
695_S699_E1.7791.00
678_D682_K1.7751.00
295_A299_A1.7731.00
147_A150_T1.7661.00
441_R444_E1.7661.00
296_A299_A1.7561.00
616_A620_A1.7491.00
587_R591_L1.7441.00
388_A392_D1.7421.00
592_A596_D1.7381.00
315_E318_A1.7291.00
628_R631_E1.7231.00
245_R248_E1.7231.00
541_E545_R1.7181.00
271_E275_E1.7121.00
430_T434_D1.7081.00
9_S69_E1.7071.00
583_A587_R1.7061.00
713_V720_L1.6981.00
586_E590_A1.6871.00
472_D476_R1.6851.00
276_T280_R1.6851.00
327_A331_R1.6821.00
547_A550_D1.6771.00
139_E142_K1.6751.00
360_T364_E1.6751.00
574_L578_N1.6711.00
258_E262_D1.6661.00
322_Q326_V1.6651.00
318_A322_Q1.6471.00
311_D315_E1.6401.00
490_E493_A1.6391.00
727_L730_E1.6391.00
552_E555_D1.6331.00
694_E698_E1.6311.00
385_R388_A1.6271.00
630_S633_R1.6261.00
351_A355_D1.6261.00
478_A481_D1.6241.00
312_A315_E1.6241.00
543_R547_A1.6241.00
578_N582_T1.6211.00
366_A369_D1.6201.00
236_R240_A1.6181.00
488_E492_D1.6181.00
417_A421_R1.6161.00
348_A352_A1.6141.00
416_D420_E1.6101.00
636_K640_D1.6031.00
512_D515_E1.5931.00
227_A231_Q1.5911.00
262_D266_A1.5901.00
413_F416_D1.5861.00
564_R568_D1.5821.00
294_E297_A1.5781.00
357_R361_L1.5781.00
520_R524_R1.5761.00
350_D353_T1.5731.00
297_A301_D1.5631.00
390_D394_E1.5631.00
545_R548_D1.5631.00
414_L418_T1.5631.00
657_R661_Y1.5621.00
518_R522_V1.5621.00
409_A413_F1.5611.00
275_E278_A1.5611.00
418_T422_D1.5601.00
58_A62_T1.5581.00
368_L372_A1.5581.00
436_Q440_D1.5571.00
274_R278_A1.5481.00
484_L488_E1.5381.00
615_R619_A1.5371.00
656_D659_E1.5371.00
610_R614_K1.5351.00
479_E483_E1.5301.00
661_Y664_Q1.5251.00
638_T642_E1.5221.00
253_L257_E1.5221.00
329_R332_E1.5201.00
211_H215_L1.5141.00
671_A675_D1.5111.00
399_A403_A1.5081.00
261_A265_E1.5081.00
555_D559_D1.5031.00
343_Q347_A1.5011.00
630_S634_E1.5011.00
438_A442_V1.4981.00
463_G467_V1.4971.00
623_E626_R1.4961.00
6_L21_L1.4941.00
362_R366_A1.4911.00
757_A761_L1.4911.00
237_D240_A1.4901.00
562_A566_A1.4901.00
677_D680_Q1.4891.00
336_A339_R1.4871.00
434_D438_A1.4851.00
367_A371_E1.4841.00
700_H704_Q1.4821.00
654_D657_R1.4811.00
605_R609_Q1.4791.00
305_D308_D1.4791.00
563_K566_A1.4771.00
620_A624_Q1.4751.00
431_L435_R1.4711.00
633_R637_R1.4711.00
755_S758_R1.4701.00
299_A303_G1.4701.00
493_A497_R1.4701.00
509_D513_D1.4641.00
442_V446_E1.4631.00
292_D296_A1.4501.00
397_M401_D1.4501.00
560_A564_R1.4491.00
284_H287_R1.4471.00
704_Q708_Q1.4471.00
290_D294_E1.4451.00
59_D62_T1.4441.00
702_R706_R1.4411.00
283_D286_E1.4391.00
71_D82_H1.4361.00
622_N626_R1.4341.00
475_E479_E1.4331.00
356_E360_T1.4311.00
538_Q541_E1.4301.00
184_N187_G1.4261.00
261_A264_R1.4241.00
224_H228_E1.4221.00
623_E627_D1.4181.00
675_D678_D1.4181.00
566_A569_E1.4151.00
62_T65_A1.4151.00
849_V856_L1.4151.00
469_R472_D1.4121.00
289_S292_D1.4121.00
324_E327_A1.4111.00
531_I534_A1.4091.00
492_D496_Q1.4071.00
755_S759_I1.4051.00
410_A414_L1.4051.00
355_D359_E1.4041.00
316_R320_A1.4031.00
485_A488_E1.4031.00
579_A583_A1.4021.00
364_E367_A1.4001.00
550_D554_E1.3961.00
381_D385_R1.3911.00
389_L393_I1.3901.00
251_T254_A1.3881.00
410_A413_F1.3821.00
229_R233_R1.3801.00
494_V498_V1.3791.00
629_L632_L1.3781.00
522_V526_D1.3771.00
277_L281_V1.3761.00
523_E527_E1.3761.00
428_V432_R1.3751.00
312_A316_R1.3741.00
616_A619_A1.3731.00
559_D563_K1.3711.00
789_L828_H1.3691.00
608_A612_A1.3671.00
249_S253_L1.3661.00
306_D310_E1.3651.00
363_E367_A1.3651.00
238_D242_V1.3621.00
293_D297_A1.3611.00
214_A217_E1.3611.00
255_D259_T1.3591.00
226_E230_E1.3581.00
427_R430_T1.3551.00
478_A482_A1.3471.00
524_R527_E1.3461.00
575_A579_A1.3461.00
248_E252_A1.3461.00
617_A621_Q1.3401.00
205_H208_L1.3371.00
337_V341_T1.3361.00
421_R425_R1.3321.00
398_A402_D1.3321.00
334_A338_S1.3311.00
438_A441_R1.3281.00
403_A407_F1.3281.00
287_R290_D1.3281.00
637_R640_D1.3231.00
587_R590_A1.3211.00
8_L39_L1.3211.00
57_L62_T1.3211.00
573_T577_L1.3201.00
711_Q715_D1.3171.00
634_E637_R1.3161.00
470_V474_R1.3161.00
517_Q520_R1.3141.00
439_A443_A1.3131.00
233_R237_D1.3121.00
286_E290_D1.3121.00
371_E374_D1.3111.00
270_A274_R1.3061.00
218_V222_I1.3061.00
411_E415_D1.3051.00
552_E556_A1.3051.00
525_R529_A1.3021.00
265_E269_E1.3011.00
544_D548_D1.3011.00
387_E390_D1.3001.00
357_R360_T1.3001.00
491_L495_A1.3001.00
250_R254_A1.2941.00
321_D324_E1.2931.00
415_D419_A1.2901.00
473_D477_V1.2891.00
314_A317_D1.2891.00
595_V599_E1.2881.00
304_L308_D1.2881.00
359_E362_R1.2871.00
317_D320_A1.2861.00
399_A402_D1.2851.00
217_E221_D1.2851.00
413_F417_A1.2841.00
213_T217_E1.2841.00
386_I390_D1.2831.00
368_L371_E1.2811.00
489_D492_D1.2801.00
326_V329_R1.2801.00
556_A559_D1.2751.00
639_L643_F1.2731.00
666_E670_Q1.2651.00
568_D571_R1.2651.00
247_E251_T1.2651.00
575_A578_N1.2601.00
215_L219_T1.2601.00
170_R174_A1.2601.00
627_D630_S1.2591.00
582_T585_K1.2591.00
289_S293_D1.2561.00
83_V118_I1.2561.00
466_H470_V1.2551.00
540_A543_R1.2541.00
329_R333_V1.2521.00
328_E332_E1.2521.00
321_D325_A1.2511.00
429_A432_R1.2511.00
440_D444_E1.2511.00
742_L800_R1.2511.00
446_E450_D1.2491.00
571_R575_A1.2491.00
349_D353_T1.2471.00
473_D476_R1.2461.00
432_R436_Q1.2451.00
240_A244_E1.2451.00
294_E298_L1.2451.00
691_A695_S1.2441.00
662_L666_E1.2411.00
425_R429_A1.2391.00
291_L295_A1.2371.00
708_Q712_A1.2371.00
664_Q668_K1.2351.00
190_D193_A1.2301.00
288_A292_D1.2301.00
319_V323_R1.2301.00
640_D644_D1.2301.00
784_G819_E1.2281.00
545_R549_L1.2271.00
663_E667_P1.2271.00
347_A351_A1.2251.00
526_D529_A1.2241.00
721_E725_G1.2241.00
313_S317_D1.2231.00
443_A446_E1.2221.00
300_A304_L1.2211.00
621_Q624_Q1.2201.00
284_H288_A1.2191.00
4_T80_D1.2191.00
701_E705_S1.2161.00
469_R473_D1.2131.00
625_R629_L1.2121.00
707_H711_Q1.2111.00
234_Q238_D1.2111.00
609_Q612_A1.2101.00
467_V471_T1.2081.00
554_E557_R1.2071.00
331_R334_A1.2061.00
335_P339_R1.2051.00
197_A200_E1.2051.00
580_D584_L1.2031.00
589_D593_D1.2021.00
206_D210_S1.2021.00
392_D395_A1.2001.00
382_A386_I1.2001.00
325_A329_R1.1991.00
346_S350_D1.1981.00
742_L745_E1.1961.00
352_A356_E1.1961.00
260_I264_R1.1961.00
444_E448_L1.1931.00
660_D664_Q1.1891.00
257_E261_A1.1881.00
446_E449_L1.1881.00
537_D541_E1.1861.00
435_R438_A1.1861.00
256_V259_T1.1831.00
46_A72_L1.1831.00
247_E250_R1.1821.00
486_D490_E1.1821.00
347_A350_D1.1821.00
266_A269_E1.1811.00
354_L358_A1.1791.00
341_T345_D1.1751.00
169_Q172_G1.1741.00
309_A313_S1.1721.00
556_A560_A1.1711.00
394_E397_M1.1701.00
558_A562_A1.1691.00
419_A422_D1.1681.00
463_G466_H1.1671.00
301_D304_L1.1661.00
714_H718_T1.1651.00
637_R641_S1.1651.00
285_R289_S1.1641.00
431_L434_D1.1641.00
370_A374_D1.1641.00
758_R761_L1.1641.00
272_R276_T1.1641.00
268_A272_R1.1631.00
230_E233_R1.1631.00
320_A324_E1.1611.00
193_A197_A1.1611.00
609_Q613_E1.1601.00
99_C102_E1.1591.00
529_A533_D1.1561.00
567_A571_R1.1561.00
537_D540_A1.1541.00
625_R628_R1.1541.00
384_A387_E1.1521.00
263_V267_V1.1511.00
483_E487_V1.1511.00
362_R365_A1.1491.00
566_A570_K1.1491.00
12_K38_S1.1491.00
495_A499_D1.1491.00
568_D572_E1.1481.00
170_R173_D1.1471.00
740_E744_N1.1401.00
508_E512_D1.1391.00
320_A323_R1.1381.00
296_A300_A1.1361.00
375_A378_K1.1351.00
303_G306_D1.1351.00
544_D547_A1.1341.00
481_D485_A1.1341.00
510_R514_L1.1331.00
420_E424_L1.1311.00
614_K617_A1.1311.00
483_E486_D1.1311.00
561_A564_R1.1301.00
708_Q711_Q1.1271.00
443_A447_A1.1261.00
471_T474_R1.1251.00
788_A823_F1.1241.00
225_F229_R1.1231.00
371_E375_A1.1191.00
419_A423_E1.1191.00
436_Q439_A1.1191.00
580_D583_A1.1171.00
393_I397_M1.1171.00
176_L180_D1.1161.00
674_E678_D1.1141.00
565_D569_E1.1131.00
603_D607_A1.1131.00
11_F45_F1.1121.00
387_E391_A1.1121.00
412_A416_D1.1111.00
561_A565_D1.1111.00
219_T223_E1.1081.00
188_Q191_R1.1081.00
340_L344_A1.1081.00
326_V330_V1.1081.00
542_K546_A1.1071.00
607_A610_R1.1061.00
721_E724_Y1.1061.00
659_E663_E1.1041.00
572_E576_A1.1031.00
169_Q173_D1.1031.00
462_E466_H1.1021.00
216_A219_T1.1021.00
395_A399_A1.1001.00
424_L428_V1.1001.00
496_Q500_R1.0991.00
627_D631_E1.0981.00
307_P310_E1.0971.00
180_D183_S1.0971.00
186_E190_D1.0961.00
427_R431_L1.0931.00
273_E276_T1.0921.00
58_A61_V1.0901.00
252_A255_D1.0881.00
226_E229_R1.0861.00
557_R561_A1.0851.00
540_A544_D1.0831.00
33_G786_E1.0821.00
176_L179_E1.0821.00
487_V490_E1.0801.00
398_A401_D1.0801.00
73_H80_D1.0791.00
756_Y759_I1.0781.00
161_L164_L1.0781.00
373_D377_A1.0771.00
528_Q531_I1.0771.00
303_G307_P1.0761.00
602_A606_E1.0761.00
401_D405_V1.0761.00
378_K382_A1.0761.00
302_L306_D1.0751.00
43_C72_L1.0741.00
655_K659_E1.0721.00
563_K567_A1.0711.00
445_A449_L1.0701.00
339_R343_Q1.0691.00
594_L598_L1.0691.00
722_T726_E1.0691.00
315_E319_V1.0671.00
216_A220_A1.0641.00
365_A369_D1.0641.00
497_R500_R1.0641.00
359_E363_E1.0631.00
61_V68_A1.0611.00
246_Y250_R1.0591.00
679_L682_K1.0591.00
384_A388_A1.0581.00
692_E695_S1.0581.00
224_H227_A1.0551.00
489_D493_A1.0531.00
203_D206_D1.0511.00
376_A380_D1.0511.00
268_A271_E1.0501.00
207_R211_H1.0491.00
332_E336_A1.0491.00
720_L726_E1.0491.00
468_E472_D1.0471.00
366_A370_A1.0461.00
549_L552_E1.0441.00
254_A257_E1.0401.00
461_V465_P1.0391.00
245_R249_S1.0361.00
632_L636_K1.0361.00
582_T586_E1.0351.00
115_E118_I1.0341.00
618_L622_N1.0331.00
676_R680_Q1.0291.00
485_A489_D1.0291.00
584_L587_R1.0281.00
344_A348_A1.0281.00
57_L60_A1.0261.00
214_A218_V1.0261.00
240_A243_L1.0251.00
317_D321_D1.0251.00
352_A355_D1.0241.00
221_D224_H1.0241.00
526_D530_D1.0221.00
826_S854_D1.0191.00
611_L614_K1.0191.00
279_D283_D1.0161.00
665_V669_L1.0141.00
612_A615_R1.0121.00
222_I226_E1.0121.00
492_D495_A1.0091.00
286_E289_S1.0081.00
165_E169_Q1.0071.00
57_L61_V1.0071.00
191_R194_D1.0071.00
212_N216_A1.0071.00
343_Q346_S1.0041.00
311_D314_A1.0041.00
369_D373_D1.0041.00
611_L615_R1.0031.00
653_A657_R1.0021.00
471_T475_E1.0011.00
263_V266_A1.0001.00
333_V336_A1.0001.00
283_D287_R1.0001.00
45_F70_I0.9991.00
499_D502_E0.9981.00
788_A821_T0.9971.00
519_E522_V0.9971.00
422_D426_E0.9941.00
232_A236_R0.9931.00
177_G180_D0.9931.00
282_S285_R0.9921.00
275_E279_D0.9921.00
515_E518_R0.9911.00
404_P408_G0.9901.00
380_D383_A0.9881.00
423_E427_R0.9881.00
313_S316_R0.9871.00
342_E346_S0.9861.00
590_A594_L0.9831.00
43_C47_L0.9821.00
680_Q684_G0.9811.00
786_E819_E0.9801.00
664_Q667_P0.9791.00
562_A565_D0.9781.00
383_A387_E0.9781.00
432_R435_R0.9781.00
606_E610_R0.9761.00
631_E635_R0.9751.00
172_G176_L0.9751.00
346_S349_D0.9751.00
506_A509_D0.9741.00
591_L594_L0.9741.00
391_A394_E0.9731.00
482_A485_A0.9731.00
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166_E170_R0.5520.90
820_P823_F0.5510.90
2_R23_P0.5500.90
816_I850_V0.5490.90
135_V140_V0.5490.90
771_Q829_V0.5490.90
522_V525_R0.5480.90
116_A120_G0.5470.90
45_F48_Y0.5470.90
292_D299_A0.5460.90
785_G819_E0.5460.90
38_S42_A0.5460.90
294_E301_D0.5450.90
757_A762_S0.5450.90
139_E158_L0.5450.90
225_F228_E0.5450.90
33_G813_P0.5440.89
76_H121_L0.5440.89
532_A536_R0.5440.89
466_H469_R0.5440.89
435_R442_V0.5440.89
490_E497_R0.5430.89
651_A655_K0.5420.89
264_R267_V0.5420.89
642_E645_A0.5400.89
168_R172_G0.5400.89
14_Y45_F0.5390.89
795_R802_L0.5390.89
788_A853_D0.5370.89
815_L821_T0.5360.89
821_T832_L0.5360.89
790_F828_H0.5350.89
799_Y822_V0.5340.89
743_L788_A0.5340.89
474_R481_D0.5340.89
795_R822_V0.5330.88
699_E702_R0.5330.88
641_S645_A0.5330.88
48_Y122_L0.5320.88
40_L134_Y0.5320.88
188_Q195_Q0.5310.88
736_V740_E0.5310.88
791_N794_L0.5300.88
724_Y732_R0.5300.88
33_G828_H0.5300.88
151_R158_L0.5280.88
99_C104_P0.5280.88
755_S763_G0.5280.88
633_R640_D0.5270.88
728_R731_L0.5260.88
136_R140_V0.5260.88
702_R705_S0.5250.88
360_T363_E0.5240.88
391_A395_A0.5240.88
647_R651_A0.5240.88
760_E764_E0.5220.87
47_L72_L0.5220.87
625_R632_L0.5220.87
242_V245_R0.5210.87
802_L822_V0.5210.87
613_E616_A0.5200.87
75_E78_G0.5190.87
138_G824_L0.5180.87
597_R600_A0.5180.87
42_A70_I0.5170.87
578_N581_Q0.5170.87
61_V65_A0.5160.87
33_G819_E0.5160.87
272_R275_E0.5160.87
133_A140_V0.5150.87
210_S213_T0.5150.87
128_A161_L0.5140.87
478_A485_A0.5130.87
292_D295_A0.5120.86
604_A607_A0.5100.86
650_T653_A0.5090.86
21_L848_V0.5090.86
17_A21_L0.5090.86
659_E662_L0.5080.86
595_V598_L0.5070.86
277_L280_R0.5070.86
732_R738_K0.5060.86
12_K156_D0.5060.86
707_H713_V0.5060.86
600_A603_D0.5050.86
815_L845_E0.5050.86
680_Q683_I0.5040.86
771_Q774_G0.5040.86
45_F87_I0.5030.85
845_E853_D0.5020.85
813_P824_L0.5020.85
128_A132_C0.5020.85
179_E714_H0.5020.85
742_L801_L0.5010.85
787_R796_T0.5010.85
670_Q673_R0.5010.85
433_A437_S0.5010.85
395_A398_A0.5010.85
717_V721_E0.5010.85
713_V728_R0.5000.85
400_F407_F0.5000.85
693_L700_H0.5000.85
823_F829_V0.5000.85
570_K573_T0.5000.85
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  
4ux3A 1 0.4723 100 0.61 Contact Map
3zgxA 2 0.3749 100 0.634 Contact Map
3auyA 2 0.4145 100 0.634 Contact Map
4ad8A 1 0.4655 100 0.652 Contact Map
1w1wA 2 0.3613 100 0.668 Contact Map
3qf7A 2 0.3986 100 0.692 Contact Map
3qktA 2 0.3783 100 0.721 Contact Map
4i99A 2 0.3431 100 0.726 Contact Map
4abyA 1 0.3805 100 0.728 Contact Map
3qksA 1 0.2197 100 0.755 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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