GREMLIN Database
RAD50 - DNA double-strand break repair Rad50 ATPase
UniProt: Q97WH0 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 864 (814)
Sequences: 6533 (6339)
Seq/√Len: 222.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
5_K18_E3.0051.00
7_T18_E2.8431.00
496_K500_E2.7821.00
7_T70_T2.5341.00
448_Y451_Q2.3951.00
733_K824_A2.3821.00
311_E315_Y2.3711.00
456_K460_E2.3051.00
111_E114_K2.2741.00
414_I417_N2.2281.00
396_N400_Q2.2151.00
603_K607_E2.2061.00
61_R64_S2.2041.00
608_D612_Q2.1961.00
691_K695_A2.1731.00
84_R92_D2.1691.00
568_R571_E2.1631.00
311_E314_E2.1461.00
534_E538_L2.1391.00
60_I64_S2.1311.00
70_T83_I2.1251.00
517_E520_K2.0991.00
560_K564_E2.0961.00
446_K450_L2.0771.00
206_K210_E2.0721.00
412_N416_N2.0631.00
236_Q239_K2.0611.00
545_E548_K2.0471.00
331_K334_E2.0411.00
313_E316_E2.0061.00
590_E594_V1.9781.00
334_E338_K1.9761.00
291_Y295_A1.9721.00
669_E673_E1.9641.00
287_K290_K1.9531.00
239_K243_T1.9351.00
246_I250_E1.9321.00
332_Y336_E1.9211.00
372_E375_N1.9191.00
336_E340_E1.9161.00
335_L339_L1.9151.00
345_K349_Y1.9041.00
416_N420_Q1.8971.00
585_K588_D1.8971.00
532_Y536_M1.8901.00
417_N420_Q1.8891.00
269_D272_E1.8841.00
543_K547_D1.8631.00
271_L275_I1.8561.00
384_E388_E1.8471.00
259_E262_R1.8451.00
449_I453_E1.8391.00
665_L669_E1.8351.00
389_E393_K1.8351.00
498_N502_E1.8271.00
4_D74_S1.8251.00
564_E568_R1.8231.00
195_K198_R1.8201.00
455_N458_E1.8121.00
453_E457_N1.8041.00
298_H302_S1.8031.00
90_T94_L1.8001.00
555_E559_K1.7991.00
702_I708_E1.7941.00
260_E264_Q1.7871.00
309_E313_E1.7851.00
457_N460_E1.7831.00
565_K569_G1.7821.00
356_L360_L1.7821.00
693_I697_N1.7761.00
407_L410_E1.7631.00
243_T246_I1.7571.00
382_S386_K1.7511.00
471_N474_E1.7491.00
173_N176_R1.7471.00
566_E570_L1.7451.00
451_Q455_N1.7311.00
703_R707_G1.7311.00
162_G165_V1.7271.00
653_E657_R1.7261.00
295_A299_T1.7251.00
9_T68_S1.7221.00
304_N308_L1.7221.00
355_D359_K1.7191.00
5_K72_Y1.7181.00
340_E343_Q1.7121.00
193_E196_R1.7071.00
314_E318_A1.7071.00
522_N526_K1.7001.00
400_Q404_V1.6961.00
606_L610_I1.6961.00
255_N259_E1.6941.00
305_V309_E1.6911.00
411_K415_I1.6881.00
367_E371_S1.6811.00
341_E345_K1.6751.00
620_V624_R1.6721.00
619_E622_N1.6711.00
524_E528_L1.6691.00
270_Q274_E1.6671.00
470_L474_E1.6661.00
248_E252_N1.6621.00
390_T394_Q1.6601.00
254_L257_S1.6501.00
467_T471_N1.6471.00
184_D187_N1.6451.00
617_Q621_K1.6431.00
253_E257_S1.6421.00
474_E478_R1.6421.00
519_K522_N1.6411.00
256_R260_E1.6271.00
352_L355_D1.6211.00
247_K250_E1.6181.00
527_E531_Y1.6171.00
447_S451_Q1.6161.00
60_I63_G1.6141.00
402_A405_E1.6131.00
4_D79_K1.6121.00
553_L557_K1.6111.00
668_L672_I1.6111.00
316_E320_R1.6081.00
413_E420_Q1.6031.00
269_D273_K1.6031.00
548_K552_K1.5991.00
344_P348_Q1.5821.00
531_Y534_E1.5811.00
538_L542_T1.5771.00
407_L411_K1.5731.00
468_N472_K1.5721.00
625_E629_I1.5711.00
133_E136_K1.5681.00
613_V616_L1.5671.00
469_E472_K1.5661.00
562_E566_E1.5641.00
469_E473_I1.5631.00
207_E210_E1.5631.00
610_I614_K1.5621.00
276_N279_E1.5601.00
290_K293_V1.5591.00
513_N517_E1.5591.00
695_A698_K1.5521.00
394_Q398_R1.5521.00
371_S375_N1.5501.00
397_L401_L1.5491.00
3_I71_L1.5471.00
519_K523_E1.5431.00
92_D96_R1.5401.00
405_E409_S1.5391.00
342_L346_Y1.5261.00
445_A449_I1.5251.00
590_E593_R1.5231.00
626_E629_I1.5221.00
463_L467_T1.5211.00
571_E575_K1.5211.00
523_E527_E1.5191.00
547_D550_R1.5141.00
205_D208_K1.5131.00
573_E577_L1.5051.00
386_K389_E1.4991.00
408_I412_N1.4941.00
700_E704_S1.4901.00
233_K236_Q1.4901.00
272_E276_N1.4891.00
221_K224_K1.4881.00
545_E549_K1.4871.00
524_E527_E1.4841.00
614_K617_Q1.4831.00
686_L689_R1.4801.00
274_E277_E1.4781.00
337_R341_E1.4781.00
365_R368_K1.4631.00
290_K294_L1.4611.00
242_T245_K1.4531.00
781_A814_R1.4491.00
601_K605_I1.4481.00
88_S92_D1.4461.00
404_V408_I1.4451.00
308_L312_I1.4431.00
240_L244_L1.4431.00
667_S671_D1.4411.00
587_L590_E1.4401.00
353_K357_D1.4381.00
347_Q350_L1.4321.00
613_V617_Q1.4311.00
622_N626_E1.4311.00
497_L501_I1.4271.00
362_L365_R1.4261.00
257_S260_E1.4261.00
338_K341_E1.4251.00
373_L377_I1.4251.00
526_K529_K1.4241.00
252_N255_N1.4221.00
307_N311_E1.4211.00
600_K604_G1.4211.00
400_Q403_K1.4201.00
466_I469_E1.4181.00
292_E295_A1.4171.00
381_N384_E1.4121.00
636_R639_E1.4111.00
834_V841_V1.4071.00
541_Y545_E1.4021.00
624_R628_N1.4011.00
315_Y318_A1.4011.00
345_K348_Q1.3991.00
386_K390_T1.3991.00
409_S412_N1.3981.00
398_R402_A1.3951.00
472_K476_E1.3931.00
583_E587_L1.3911.00
297_S301_M1.3901.00
84_R90_T1.3861.00
367_E370_A1.3861.00
244_L248_E1.3861.00
333_K336_E1.3851.00
416_N419_S1.3851.00
317_K321_R1.3791.00
529_K533_E1.3781.00
379_K382_S1.3761.00
502_E505_H1.3731.00
224_K228_D1.3731.00
300_E304_N1.3721.00
546_L550_R1.3711.00
554_D558_K1.3691.00
12_L38_S1.3691.00
380_V384_E1.3671.00
549_K552_K1.3661.00
464_K468_N1.3661.00
385_Q389_E1.3631.00
328_K331_K1.3631.00
651_L655_E1.3621.00
452_L456_K1.3581.00
567_M571_E1.3571.00
505_H509_E1.3571.00
302_S306_I1.3571.00
569_G573_E1.3571.00
438_K442_I1.3561.00
776_G805_E1.3561.00
401_L405_E1.3531.00
414_I418_I1.3501.00
611_R615_L1.3491.00
315_Y319_I1.3461.00
374_S377_I1.3431.00
310_K314_E1.3431.00
686_L690_E1.3431.00
735_D739_K1.3401.00
351_K355_D1.3401.00
600_K603_K1.3381.00
690_E694_N1.3381.00
168_R172_E1.3301.00
222_D226_Q1.3301.00
391_R395_L1.3281.00
250_E253_E1.3271.00
293_V297_S1.3251.00
343_Q347_Q1.3251.00
413_E417_N1.3211.00
273_K277_E1.3201.00
607_E611_R1.3191.00
296_K299_T1.3181.00
232_K236_Q1.3171.00
665_L668_L1.3161.00
297_S300_E1.3151.00
287_K291_Y1.3151.00
535_F538_L1.3091.00
751_R754_S1.3081.00
654_K657_R1.3071.00
198_R201_E1.3051.00
342_L345_K1.3051.00
417_N421_V1.3041.00
8_L39_I1.3041.00
375_N379_K1.3031.00
504_L508_I1.3021.00
599_M603_K1.3011.00
381_N385_Q1.3001.00
361_N365_R1.2991.00
393_K396_N1.2981.00
249_G253_E1.2911.00
368_K372_E1.2851.00
637_Y641_K1.2851.00
607_E610_I1.2821.00
661_I665_L1.2811.00
160_S163_P1.2811.00
327_P331_K1.2751.00
685_Q688_D1.2751.00
615_L619_E1.2731.00
612_Q615_L1.2721.00
533_E536_M1.2721.00
335_L338_K1.2701.00
462_E465_K1.2681.00
326_E329_Y1.2661.00
539_S543_K1.2641.00
191_T195_K1.2601.00
262_R266_E1.2591.00
780_I809_H1.2581.00
70_T81_E1.2541.00
370_A374_S1.2541.00
573_E576_G1.2541.00
476_E479_R1.2531.00
623_L626_E1.2531.00
455_N459_L1.2511.00
312_I315_Y1.2491.00
518_I522_N1.2461.00
214_K217_E1.2401.00
520_K524_E1.2391.00
552_K556_M1.2381.00
324_E328_K1.2371.00
491_M495_K1.2361.00
540_K543_K1.2301.00
648_N652_K1.2271.00
226_Q229_E1.2241.00
635_N638_N1.2241.00
348_Q352_L1.2241.00
724_E728_N1.2221.00
395_L399_A1.2201.00
192_V196_R1.2191.00
387_V391_R1.2151.00
552_K555_E1.2151.00
235_N239_K1.2141.00
306_I309_E1.2091.00
223_I227_F1.2081.00
383_L387_V1.2081.00
515_D519_K1.2081.00
245_K249_G1.2061.00
448_Y452_L1.2061.00
197_A201_E1.2051.00
271_L274_E1.2041.00
616_L620_V1.2041.00
212_E215_N1.2031.00
60_I67_G1.2021.00
159_D162_G1.2011.00
697_N701_K1.2001.00
741_V745_I1.1991.00
737_S741_V1.1991.00
208_K212_E1.1981.00
606_L609_Y1.1971.00
605_I608_D1.1971.00
216_L220_I1.1951.00
726_N792_K1.1951.00
672_I675_I1.1931.00
450_L453_E1.1901.00
181_I188_F1.1901.00
294_L298_H1.1891.00
558_K562_E1.1891.00
464_K467_T1.1871.00
410_E414_I1.1871.00
494_L498_N1.1871.00
666_E670_K1.1861.00
358_S361_N1.1851.00
240_L243_T1.1841.00
621_K624_R1.1841.00
701_K705_A1.1831.00
245_K248_E1.1821.00
503_N507_E1.1801.00
304_N307_N1.1791.00
588_D592_K1.1781.00
264_Q267_N1.1781.00
444_E448_Y1.1781.00
6_I21_F1.1741.00
365_R369_D1.1721.00
557_K561_E1.1711.00
493_Q496_K1.1701.00
643_S646_A1.1701.00
104_S107_V1.1681.00
666_E669_E1.1671.00
575_K578_D1.1661.00
537_R540_K1.1661.00
338_K342_L1.1651.00
566_E569_G1.1641.00
234_R238_L1.1621.00
554_D557_K1.1611.00
362_L366_L1.1601.00
301_M305_V1.1601.00
702_I705_A1.1561.00
286_L290_K1.1551.00
316_E319_I1.1551.00
517_E521_I1.1541.00
136_K140_N1.1541.00
550_R554_D1.1521.00
186_N189_K1.1511.00
403_K407_L1.1501.00
247_K251_L1.1501.00
559_K562_E1.1481.00
11_F45_F1.1461.00
225_D228_D1.1451.00
192_V195_K1.1451.00
581_A585_K1.1441.00
660_R664_E1.1441.00
33_G778_E1.1431.00
447_S450_L1.1421.00
645_D648_N1.1411.00
318_A321_R1.1401.00
328_K332_Y1.1391.00
650_S653_E1.1341.00
46_S71_L1.1341.00
223_I226_Q1.1331.00
484_K488_D1.1331.00
695_A702_I1.1321.00
165_V168_R1.1291.00
251_L255_N1.1281.00
644_L648_N1.1281.00
443_K447_S1.1271.00
220_I224_K1.1221.00
778_E805_E1.1211.00
388_E391_R1.1191.00
591_N595_K1.1191.00
330_L334_E1.1181.00
741_V744_E1.1171.00
321_R324_E1.1141.00
623_L627_V1.1141.00
262_R265_T1.1131.00
742_E760_L1.1121.00
402_A406_S1.1121.00
475_R479_R1.1121.00
739_K743_M1.1101.00
349_Y352_L1.1091.00
222_D225_D1.1081.00
299_T302_S1.1061.00
82_I112_I1.1031.00
670_K674_E1.1031.00
538_L541_Y1.1011.00
533_E537_R1.0991.00
298_H301_M1.0971.00
568_R572_S1.0971.00
270_Q273_K1.0961.00
544_E548_K1.0951.00
261_L264_Q1.0951.00
618_E621_K1.0951.00
213_I217_E1.0931.00
203_K207_E1.0901.00
182_E186_N1.0891.00
704_S708_E1.0881.00
595_K598_E1.0861.00
376_D380_V1.0851.00
547_D551_V1.0851.00
258_I262_R1.0841.00
189_K193_E1.0831.00
415_I418_I1.0821.00
163_P166_E1.0811.00
68_S85_D1.0811.00
780_I807_T1.0801.00
238_L241_T1.0771.00
72_Y81_E1.0751.00
346_Y350_L1.0741.00
643_S647_Y1.0731.00
331_K335_L1.0721.00
303_A306_I1.0721.00
586_I590_E1.0701.00
549_K553_L1.0701.00
216_L219_R1.0701.00
650_S654_K1.0691.00
530_L533_E1.0681.00
809_H841_V1.0681.00
450_L454_L1.0661.00
761_V782_L1.0651.00
363_K367_E1.0641.00
494_L497_L1.0631.00
482_N486_S1.0611.00
499_E503_N1.0601.00
696_I700_E1.0591.00
329_Y333_K1.0581.00
242_T246_I1.0581.00
635_N639_E1.0571.00
527_E530_L1.0531.00
466_I470_L1.0531.00
250_E254_L1.0521.00
43_I47_L1.0511.00
366_L370_A1.0451.00
354_S357_D1.0451.00
556_M559_K1.0451.00
257_S261_L1.0421.00
364_E367_E1.0421.00
225_D229_E1.0411.00
493_Q497_L1.0341.00
289_E293_V1.0341.00
653_E656_N1.0331.00
495_K498_N1.0331.00
218_K222_D1.0311.00
616_L619_E1.0301.00
471_N475_R1.0301.00
67_G86_I1.0281.00
602_K605_I1.0271.00
470_L473_I1.0251.00
219_R222_D1.0251.00
112_I115_I1.0241.00
620_V623_L1.0221.00
521_I525_V1.0221.00
780_I806_P1.0211.00
664_E667_S1.0211.00
180_R183_Q1.0201.00
516_E520_K1.0201.00
659_S662_E1.0201.00
604_G608_D1.0191.00
556_M560_K1.0191.00
678_R682_Y1.0181.00
584_S588_D1.0171.00
169_K172_E1.0171.00
502_E506_S1.0171.00
346_Y349_Y1.0161.00
349_Y353_K1.0131.00
352_L356_L1.0121.00
636_R640_L1.0111.00
8_L42_G1.0111.00
43_I71_L1.0101.00
278_L283_N1.0091.00
678_R681_N1.0081.00
611_R614_K1.0071.00
680_A683_E1.0041.00
454_L458_E1.0021.00
691_K698_K1.0011.00
531_Y535_F1.0011.00
468_N471_N0.9971.00
806_P838_D0.9951.00
780_I808_I0.9941.00
663_G667_S0.9941.00
73_L80_I0.9941.00
673_E677_N0.9931.00
339_L343_Q0.9921.00
394_Q397_L0.9911.00
293_V296_K0.9911.00
477_Y481_S0.9911.00
285_K288_F0.9881.00
716_I720_K0.9881.00
355_D358_S0.9871.00
500_E503_N0.9841.00
483_N486_S0.9831.00
212_E216_L0.9831.00
406_S410_E0.9831.00
204_K208_K0.9821.00
215_N219_R0.9821.00
703_R706_L0.9801.00
439_Q443_K0.9791.00
812_D839_E0.9771.00
528_L531_Y0.9771.00
787_R807_T0.9771.00
592_K596_L0.9751.00
514_I518_I0.9751.00
726_N729_D0.9741.00
803_L822_I0.9731.00
711_L715_I0.9711.00
56_N60_I0.9711.00
203_K206_K0.9671.00
110_N113_E0.9641.00
72_Y79_K0.9641.00
574_L578_D0.9641.00
399_A402_A0.9631.00
390_T393_K0.9631.00
625_E628_N0.9631.00
254_L258_I0.9601.00
639_E643_S0.9601.00
369_D372_E0.9601.00
530_L534_E0.9591.00
217_E221_K0.9571.00
413_E416_N0.9571.00
442_I446_K0.9561.00
609_Y613_V0.9561.00
671_D674_E0.9541.00
58_N62_K0.9521.00
735_D741_V0.9511.00
243_T247_K0.9501.00
805_E835_V0.9501.00
525_V529_K0.9491.00
129_V137_I0.9491.00
592_K595_K0.9491.00
619_E623_L0.9481.00
737_S743_M0.9481.00
241_T245_K0.9461.00
313_E317_K0.9461.00
180_R184_D0.9461.00
109_S112_I0.9431.00
89_T94_L0.9431.00
45_F69_V0.9421.00
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185_Y189_K0.5310.87
587_L591_N0.5310.87
130_R145_M0.5310.87
681_N684_L0.5300.87
408_I416_N0.5290.87
712_Q727_L0.5290.87
174_K181_I0.5280.87
518_I521_I0.5260.86
414_I421_V0.5260.86
370_A373_L0.5260.86
412_N415_I0.5260.86
112_I116_L0.5250.86
782_L805_E0.5240.86
33_G814_R0.5240.86
787_R838_D0.5220.86
33_G781_A0.5220.86
174_K178_L0.5220.86
322_K325_L0.5220.86
33_G835_V0.5220.86
780_I799_N0.5210.86
787_R808_I0.5210.86
373_L376_D0.5210.86
129_V138_L0.5200.86
778_E798_T0.5200.86
42_G69_V0.5190.86
787_R792_K0.5180.86
103_R108_V0.5180.86
670_K673_E0.5180.86
737_S742_E0.5180.86
86_I94_L0.5170.86
75_N80_I0.5170.86
694_N698_K0.5170.86
720_K727_L0.5150.85
38_S48_F0.5150.85
557_K560_K0.5140.85
762_Y768_T0.5140.85
348_Q351_K0.5130.85
787_R800_F0.5130.85
792_K797_N0.5120.85
788_L822_I0.5120.85
119_D122_I0.5120.85
719_T727_L0.5120.85
695_A699_L0.5110.85
487_Y490_V0.5110.85
648_N651_L0.5110.85
296_K300_E0.5100.85
29_V37_S0.5100.85
122_I130_R0.5100.85
838_D842_V0.5100.85
454_L461_E0.5080.85
801_F807_T0.5080.85
786_L790_I0.5070.84
98_Q102_A0.5070.84
799_N807_T0.5060.84
817_Y821_I0.5060.84
787_R809_H0.5050.84
200_L203_K0.5050.84
496_K499_E0.5050.84
45_F84_R0.5050.84
32_N134_L0.5040.84
739_K745_I0.5040.84
778_E783_S0.5040.84
778_E837_H0.5040.84
12_L26_N0.5030.84
715_I720_K0.5030.84
81_E84_R0.5020.84
716_I757_G0.5020.84
713_S717_M0.5020.84
699_L708_E0.5010.84
830_P838_D0.5010.84
675_I678_R0.5000.84
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 0.4769 100 0.632 Contact Map
3auyA 2 0.4167 100 0.638 Contact Map
4ad8A 1 0.478 100 0.66 Contact Map
3zgxA 2 0.3831 100 0.663 Contact Map
1w1wA 2 0.3634 100 0.703 Contact Map
3qf7A 2 0.397 100 0.708 Contact Map
3qktA 2 0.3796 100 0.729 Contact Map
4i99A 2 0.3391 100 0.741 Contact Map
4abyA 1 0.3796 100 0.742 Contact Map
3qksA 1 0.2141 100 0.776 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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