GREMLIN Database
YFGF - Cyclic di-GMP phosphodiesterase YfgF
UniProt: P77172 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG14202
Length: 747 (614)
Sequences: 5226 (4503)
Seq/√Len: 181.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
525_H736_T5.7171.00
728_G731_Q5.1291.00
563_E605_K5.1141.00
392_E395_E4.9901.00
328_R332_V4.8621.00
670_G674_R4.8441.00
558_D589_S4.7021.00
519_M722_M4.6021.00
637_Q664_D4.1071.00
492_D543_S3.8391.00
705_V722_M3.7501.00
600_S639_L3.7251.00
513_A568_F3.5211.00
559_M598_E3.4221.00
602_L606_Y3.3471.00
694_R720_D3.3101.00
357_C443_V3.2821.00
510_F532_K3.2701.00
708_E712_E3.1991.00
499_R533_G3.1301.00
533_G537_E3.1201.00
454_H457_L3.1021.00
585_L595_F3.0611.00
564_H567_Q2.9361.00
529_L561_V2.8951.00
512_M732_P2.8831.00
344_L406_A2.8581.00
614_I665_L2.8541.00
517_T727_I2.8181.00
659_K682_D2.8091.00
449_R452_V2.7991.00
319_Q323_V2.6581.00
511_L560_W2.6471.00
707_N710_I2.6211.00
548_A557_I2.5751.00
533_G536_D2.5691.00
569_M608_I2.5111.00
534_E537_E2.4391.00
570_A574_A2.3771.00
493_K550_E2.3741.00
529_L557_I2.3691.00
572_N733_L2.3661.00
516_I524_Y2.3631.00
713_A717_L2.3511.00
355_A447_Y2.3371.00
711_R727_I2.2741.00
391_L397_V2.2651.00
711_R722_M2.2531.00
343_A347_A2.2441.00
564_H568_F2.2381.00
359_L441_I2.2311.00
573_R612_Q2.1811.00
347_A396_D2.1601.00
568_F572_N2.1411.00
339_P343_A2.1391.00
563_E606_Y2.0891.00
633_L643_I2.0851.00
644_A665_L2.0801.00
532_K538_L2.0461.00
568_F733_L2.0451.00
378_Q381_Q2.0211.00
509_F529_L2.0151.00
642_Q664_D2.0101.00
587_P620_S2.0021.00
516_I721_Y1.9611.00
732_P735_D1.9501.00
508_H533_G1.9291.00
368_V376_R1.9231.00
418_I445_Y1.9181.00
563_E602_L1.8871.00
382_K385_H1.8861.00
357_C418_I1.8811.00
344_L398_Y1.8781.00
711_R726_L1.8621.00
677_V709_E1.8581.00
348_L455_I1.8491.00
502_Q508_H1.8461.00
502_Q506_H1.8421.00
499_R536_D1.8281.00
516_I665_L1.8271.00
510_F538_L1.8051.00
343_A396_D1.8051.00
545_L554_S1.8011.00
711_R715_L1.7951.00
529_L560_W1.7941.00
358_Y468_L1.7901.00
708_E726_L1.7791.00
511_L561_V1.7691.00
645_I663_A1.7661.00
382_K430_F1.7661.00
511_L565_T1.7471.00
373_I463_N1.7191.00
361_I383_L1.7181.00
677_V683_Y1.6911.00
507_N564_H1.6901.00
702_A719_I1.6851.00
445_Y481_R1.6641.00
666_L693_A1.6601.00
378_Q433_D1.6521.00
670_G704_Y1.6361.00
492_D536_D1.6231.00
419_T423_S1.6201.00
560_W564_H1.6181.00
496_M547_V1.5971.00
452_V461_E1.5941.00
725_Y730_P1.5881.00
585_L615_F1.5851.00
512_M538_L1.5801.00
369_K469_S1.5751.00
566_L602_L1.5711.00
580_R642_Q1.5621.00
690_C719_I1.5621.00
379_Y430_F1.5601.00
665_L701_V1.5481.00
699_L720_D1.5461.00
497_M501_Q1.5461.00
400_L406_A1.5451.00
583_I613_L1.5411.00
463_N469_S1.5411.00
582_A614_I1.5331.00
603_L641_C1.5211.00
683_Y713_A1.5101.00
595_F599_V1.5081.00
533_G539_I1.5061.00
368_V402_G1.5051.00
363_G497_M1.4991.00
367_L379_Y1.4771.00
422_D443_V1.4691.00
599_V636_L1.4681.00
500_L509_F1.4511.00
362_P442_G1.4461.00
650_T672_F1.4451.00
687_A695_M1.4411.00
694_R700_V1.4371.00
312_M315_L1.4351.00
385_H388_S1.4351.00
358_Y406_A1.4321.00
379_Y439_P1.4311.00
360_R472_T1.4251.00
549_H554_S1.4211.00
523_V739_E1.4041.00
731_Q739_E1.4031.00
451_P481_R1.3911.00
363_G476_E1.3861.00
404_D463_N1.3821.00
603_L608_I1.3801.00
609_E612_Q1.3621.00
474_A480_R1.3601.00
566_L613_L1.3571.00
440_Q477_N1.3401.00
508_H534_E1.3391.00
516_I701_V1.3391.00
402_G469_S1.3351.00
562_I602_L1.3261.00
353_W450_S1.3241.00
365_E469_S1.3211.00
320_R323_V1.3211.00
569_M581_F1.3151.00
382_K386_W1.3091.00
511_L529_L1.3031.00
659_K675_N1.2911.00
539_I545_L1.2891.00
676_I713_A1.2871.00
391_L395_E1.2821.00
601_Q605_K1.2751.00
344_L348_L1.2691.00
346_R396_D1.2621.00
536_D543_S1.2601.00
343_A346_R1.2601.00
699_L721_Y1.2581.00
508_H531_M1.2541.00
361_I441_I1.2531.00
677_V713_A1.2501.00
573_R609_E1.2421.00
568_F737_L1.2401.00
425_L430_F1.2371.00
702_A714_V1.2371.00
614_I644_A1.2341.00
690_C717_L1.2301.00
221_L229_L1.2161.00
445_Y479_Q1.2141.00
569_M573_R1.2131.00
663_A698_M1.2101.00
431_F434_G1.2101.00
247_L251_L1.2091.00
693_A700_V1.2051.00
527_I581_F1.2041.00
365_E368_V1.2041.00
580_R614_I1.2041.00
634_Q638_E1.2001.00
448_V458_L1.1981.00
401_S469_S1.1981.00
687_A691_H1.1971.00
633_L662_N1.1941.00
728_G739_E1.1861.00
383_L425_L1.1861.00
471_V480_R1.1841.00
687_A717_L1.1801.00
232_M240_I1.1741.00
364_M472_T1.1731.00
688_S695_M1.1711.00
185_F188_R1.1701.00
562_I599_V1.1651.00
319_Q322_V1.1641.00
407_L421_L1.1621.00
598_E602_L1.1611.00
565_T581_F1.1571.00
260_R263_Y1.1531.00
526_E584_N1.1511.00
395_E420_A1.1461.00
244_N249_L1.1381.00
647_D703_E1.1371.00
735_D738_N1.1371.00
383_L430_F1.1351.00
245_Y249_L1.1341.00
516_I580_R1.1341.00
542_D546_P1.1291.00
369_K463_N1.1281.00
618_T647_D1.1271.00
235_N239_T1.1221.00
712_E716_S1.1201.00
519_M711_R1.1201.00
518_G522_D1.1171.00
360_R469_S1.1171.00
722_M727_I1.1151.00
386_W429_R1.1131.00
418_I479_Q1.1101.00
705_V714_V1.1101.00
376_R403_N1.1091.00
542_D670_G1.1061.00
510_F732_P1.1051.00
378_Q382_K1.0991.00
315_L319_Q1.0971.00
613_L641_C1.0891.00
359_L407_L1.0891.00
368_V403_N1.0881.00
362_P476_E1.0841.00
360_R403_N1.0831.00
562_I583_I1.0811.00
566_L608_I1.0801.00
412_E417_R1.0791.00
500_L503_A1.0731.00
406_A459_L1.0711.00
516_I614_I1.0701.00
403_N472_T1.0661.00
344_L408_R1.0641.00
516_I582_A1.0631.00
325_R329_L1.0621.00
471_V478_M1.0621.00
616_E667_K1.0611.00
731_Q735_D1.0601.00
225_A229_L1.0601.00
431_F436_P1.0591.00
668_I689_I1.0581.00
373_I469_S1.0581.00
425_L441_I1.0561.00
217_A221_L1.0551.00
551_F554_S1.0541.00
221_L225_A1.0531.00
630_Q662_N1.0511.00
630_Q634_Q1.0501.00
244_N252_P1.0481.00
509_F560_W1.0401.00
362_P472_T1.0371.00
331_Y346_R1.0371.00
499_R535_N1.0331.00
323_V327_Q1.0321.00
360_R368_V1.0321.00
213_K217_A1.0301.00
426_K477_N1.0291.00
365_E369_K1.0281.00
725_Y729_K1.0271.00
685_I692_L1.0261.00
524_Y580_R1.0241.00
563_E567_Q1.0220.99
316_A320_R1.0210.99
224_G227_L1.0200.99
220_L223_L1.0190.99
365_E472_T1.0170.99
461_E487_Q1.0170.99
590_V621_N1.0140.99
277_S285_I1.0130.99
548_A554_S1.0110.99
701_V721_Y1.0080.99
333_D399_Q1.0050.99
285_I288_Y1.0020.99
528_L647_D1.0010.99
712_E715_L0.9930.99
585_L589_S0.9900.99
483_A486_L0.9890.99
518_G720_D0.9880.99
348_L408_R0.9860.99
349_R392_E0.9850.99
674_R710_I0.9830.99
368_V472_T0.9790.99
540_S546_P0.9790.99
470_I473_N0.9740.99
285_I289_P0.9680.99
364_M368_V0.9610.99
497_M547_V0.9600.99
401_S463_N0.9600.99
185_F189_V0.9580.99
673_I686_V0.9550.99
683_Y687_A0.9530.99
332_V343_A0.9520.99
422_D479_Q0.9500.99
510_F529_L0.9460.99
219_W223_L0.9440.99
614_I642_Q0.9410.99
265_L268_L0.9390.99
676_I686_V0.9390.99
368_V377_I0.9380.99
184_Y188_R0.9380.99
545_L618_T0.9380.99
575_K737_L0.9370.99
596_P632_T0.9360.99
392_E420_A0.9330.99
373_I472_T0.9330.99
325_R328_R0.9310.99
448_V452_V0.9290.99
708_E711_R0.9280.99
549_H586_S0.9280.99
600_S635_H0.9260.99
559_M563_E0.9250.99
677_V710_I0.9240.99
386_W430_F0.9210.99
375_L437_M0.9180.99
584_N646_D0.9180.99
501_Q553_L0.9170.99
567_Q606_Y0.9160.99
600_S604_A0.9150.99
363_G550_E0.9130.99
557_I561_V0.9120.99
246_T249_L0.9120.99
665_L721_Y0.9120.99
648_F689_I0.9100.99
199_Y202_Q0.9100.99
603_L610_A0.9090.99
567_Q571_E0.9080.99
401_S404_D0.9060.99
364_M403_N0.9040.99
676_I683_Y0.9030.99
536_D539_I0.9020.99
299_S302_Y0.9010.99
444_S462_L0.9010.99
253_L283_N0.9000.99
584_N667_K0.8990.99
414_H417_R0.8990.99
519_M705_V0.8980.99
618_T703_E0.8940.99
225_A228_L0.8920.99
446_C461_E0.8920.99
214_K218_L0.8900.99
370_N494_V0.8890.99
364_M380_K0.8890.99
220_L225_A0.8880.99
626_V629_A0.8860.99
548_A552_G0.8850.99
569_M606_Y0.8830.99
230_L250_L0.8820.99
531_M537_E0.8820.99
217_A220_L0.8820.99
391_L407_L0.8810.98
316_A319_Q0.8810.98
336_V380_K0.8800.98
360_R376_R0.8790.98
293_T296_T0.8770.98
418_I443_V0.8770.98
223_L227_L0.8700.98
257_G260_R0.8700.98
280_S285_I0.8680.98
572_N737_L0.8680.98
375_L435_M0.8650.98
541_P544_F0.8650.98
335_V377_I0.8650.98
470_I474_A0.8640.98
558_D585_L0.8630.98
297_I306_S0.8610.98
341_V377_I0.8600.98
444_S465_V0.8580.98
299_S303_L0.8580.98
555_S592_Q0.8570.98
270_W273_V0.8560.98
284_Y288_Y0.8560.98
366_M497_M0.8550.98
590_V633_L0.8550.98
360_R365_E0.8540.98
224_G228_L0.8530.98
551_F588_T0.8510.98
365_E404_D0.8490.98
504_L557_I0.8480.98
327_Q331_Y0.8480.98
608_I613_L0.8470.98
202_Q205_Q0.8450.98
360_R373_I0.8440.98
432_W437_M0.8410.98
244_N255_M0.8400.98
442_G475_P0.8400.98
451_P461_E0.8400.98
584_N616_E0.8380.98
365_E373_I0.8360.98
513_A527_I0.8350.98
482_G487_Q0.8350.98
365_E376_R0.8350.98
615_F643_I0.8330.98
360_R404_D0.8320.98
424_H427_Q0.8320.98
551_F555_S0.8320.98
321_A325_R0.8310.98
582_A665_L0.8300.98
630_Q660_N0.8290.98
365_E403_N0.8290.98
220_L229_L0.8280.98
539_I546_P0.8280.98
219_W222_A0.8280.98
362_P475_P0.8260.98
282_Q288_Y0.8260.98
603_L606_Y0.8260.98
324_R327_Q0.8250.98
449_R461_E0.8250.98
362_P477_N0.8250.98
296_T306_S0.8230.98
690_C714_V0.8230.98
528_L703_E0.8220.98
222_A225_A0.8210.98
553_L556_S0.8210.98
555_S589_S0.8190.98
281_Y285_I0.8170.98
211_V215_E0.8160.98
528_L584_N0.8120.97
360_R364_M0.8100.97
200_Y203_L0.8090.97
448_V451_P0.8080.97
618_T651_G0.8070.97
597_V635_H0.8030.97
328_R337_H0.8010.97
296_T299_S0.7990.97
168_N172_L0.7980.97
554_S586_S0.7970.97
413_S417_R0.7960.97
442_G476_E0.7960.97
243_T247_L0.7960.97
387_L397_V0.7950.97
690_C694_R0.7940.97
440_Q475_P0.7910.97
346_R349_R0.7900.97
220_L224_G0.7880.97
659_K679_N0.7880.97
526_E667_K0.7880.97
188_R192_N0.7870.97
682_D710_I0.7860.97
339_P396_D0.7860.97
215_E219_W0.7860.97
334_P337_H0.7850.97
318_R321_A0.7830.97
599_V602_L0.7830.97
365_E402_G0.7820.97
530_R703_E0.7820.97
446_C458_L0.7800.97
568_F571_E0.7800.97
244_N247_L0.7780.97
223_L226_L0.7780.97
528_L618_T0.7780.97
291_Y296_T0.7760.97
634_Q662_N0.7750.97
232_M244_N0.7750.97
356_L458_L0.7740.97
528_L616_E0.7740.97
513_A572_N0.7740.97
602_L605_K0.7740.97
365_E463_N0.7720.97
457_L461_E0.7720.97
244_N254_M0.7710.97
596_P635_H0.7700.96
214_K217_A0.7700.96
376_R402_G0.7680.96
426_K430_F0.7680.96
626_V661_V0.7650.96
572_N736_T0.7640.96
374_M456_Y0.7620.96
499_R534_E0.7610.96
230_L244_N0.7600.96
528_L646_D0.7590.96
227_L231_C0.7590.96
688_S692_L0.7570.96
218_L225_A0.7570.96
631_I635_H0.7560.96
224_G229_L0.7550.96
230_L233_P0.7540.96
315_L320_R0.7540.96
573_R576_M0.7530.96
263_Y267_S0.7520.96
308_I313_A0.7510.96
469_S472_T0.7510.96
562_I613_L0.7490.96
618_T672_F0.7480.96
279_H289_P0.7470.96
667_K723_Q0.7470.96
395_E409_L0.7460.96
261_Y265_L0.7460.96
555_S558_D0.7450.96
635_H638_E0.7440.96
222_A226_L0.7410.96
526_E616_E0.7390.96
464_T486_L0.7390.96
344_L356_L0.7390.96
260_R268_L0.7390.96
244_N248_S0.7380.96
396_D408_R0.7380.96
513_A564_H0.7370.95
436_P502_Q0.7360.95
269_L273_V0.7350.95
475_P478_M0.7340.95
442_G472_T0.7340.95
368_V380_K0.7340.95
390_L421_L0.7330.95
390_L420_A0.7320.95
571_E575_K0.7320.95
244_N251_L0.7310.95
511_L527_I0.7310.95
525_H579_H0.7300.95
500_L548_A0.7300.95
559_M602_L0.7300.95
673_I702_A0.7280.95
404_D472_T0.7280.95
304_V308_I0.7270.95
316_A323_V0.7270.95
679_N682_D0.7260.95
124_R127_W0.7250.95
447_Y481_R0.7250.95
549_H620_S0.7240.95
363_G366_M0.7240.95
189_V192_N0.7230.95
565_T583_I0.7220.95
376_R472_T0.7210.95
418_I422_D0.7210.95
463_N472_T0.7200.95
584_N723_Q0.7180.95
642_Q699_L0.7170.95
665_L699_L0.7150.95
495_A535_N0.7150.95
497_M551_F0.7140.95
134_T137_L0.7130.95
291_Y295_L0.7120.95
161_F164_G0.7090.94
503_A509_F0.7080.94
123_Q126_F0.7070.94
243_T253_L0.7070.94
335_V368_V0.7060.94
529_L544_F0.7050.94
347_A398_Y0.7040.94
526_E723_Q0.7030.94
164_G168_N0.7030.94
599_V641_C0.7030.94
470_I480_R0.7010.94
196_L199_Y0.7010.94
260_R266_I0.7010.94
184_Y192_N0.7000.94
449_R458_L0.6990.94
134_T138_I0.6990.94
599_V615_F0.6980.94
259_M263_Y0.6980.94
392_E412_E0.6970.94
360_R463_N0.6940.94
514_Q723_Q0.6940.94
623_L657_R0.6930.94
367_L376_R0.6930.94
256_W260_R0.6930.94
266_I269_L0.6910.94
384_S397_V0.6910.94
202_Q206_Q0.6910.94
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399_Q402_G0.6270.90
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520_R720_D0.6240.90
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235_N238_S0.6210.90
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361_I463_N0.5870.87
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299_S304_V0.5750.86
252_P255_M0.5740.86
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528_L619_E0.5640.85
214_K225_A0.5640.85
637_Q662_N0.5630.84
545_L703_E0.5630.84
335_V376_R0.5630.84
584_N725_Y0.5620.84
323_V326_I0.5620.84
220_L228_L0.5610.84
629_A632_T0.5610.84
263_Y266_I0.5610.84
587_P617_V0.5610.84
643_I664_D0.5600.84
194_F199_Y0.5590.84
369_K373_I0.5590.84
302_Y309_V0.5590.84
598_E601_Q0.5580.84
242_S245_Y0.5580.84
369_K404_D0.5570.84
517_T521_G0.5570.84
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347_A410_N0.5550.84
580_R721_Y0.5550.84
713_A716_S0.5550.84
528_L706_E0.5550.84
362_P404_D0.5540.84
322_V325_R0.5540.84
377_I402_G0.5530.83
329_L332_V0.5530.83
226_L229_L0.5530.83
545_L586_S0.5520.83
137_L146_V0.5520.83
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573_R577_P0.5510.83
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559_M601_Q0.5450.83
558_D561_V0.5450.83
570_A608_I0.5450.83
401_S472_T0.5440.82
290_G293_T0.5430.82
647_D725_Y0.5430.82
134_T141_Q0.5430.82
618_T650_T0.5420.82
675_N678_S0.5420.82
364_M442_G0.5420.82
446_C452_V0.5420.82
660_N681_L0.5420.82
615_F641_C0.5420.82
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618_T652_Y0.5400.82
541_P546_P0.5390.82
131_F134_T0.5380.82
206_Q211_V0.5370.82
373_I376_R0.5370.82
360_R442_G0.5360.81
532_K536_D0.5350.81
385_H389_P0.5350.81
211_V214_K0.5350.81
442_G463_N0.5340.81
218_L222_A0.5340.81
277_S289_P0.5330.81
345_N456_Y0.5320.81
373_I442_G0.5320.81
300_S304_V0.5320.81
514_Q584_N0.5300.81
714_V719_I0.5300.81
362_P365_E0.5290.81
514_Q646_D0.5290.81
317_T320_R0.5290.81
220_L226_L0.5290.81
304_V309_V0.5290.81
269_L272_V0.5280.81
167_I170_Q0.5280.81
218_L224_G0.5280.81
563_E598_E0.5270.80
248_S252_P0.5270.80
295_L298_T0.5260.80
526_E646_D0.5260.80
195_Y200_Y0.5250.80
122_S130_V0.5250.80
199_Y203_L0.5240.80
376_R401_S0.5230.80
523_V740_I0.5220.80
690_C700_V0.5210.80
265_L270_W0.5200.80
331_Y339_P0.5200.80
706_E710_I0.5190.79
499_R537_E0.5190.79
199_Y206_Q0.5190.79
706_E729_K0.5190.79
645_I657_R0.5180.79
257_G261_Y0.5180.79
162_N165_T0.5170.79
371_Y494_V0.5170.79
528_L667_K0.5170.79
161_F172_L0.5170.79
525_H581_F0.5170.79
256_W259_M0.5160.79
354_S408_R0.5160.79
137_L145_F0.5160.79
335_V402_G0.5150.79
594_R597_V0.5140.79
487_Q491_K0.5120.78
406_A468_L0.5120.78
514_Q706_E0.5120.78
590_V632_T0.5110.78
525_H572_N0.5110.78
232_M309_V0.5110.78
302_Y307_F0.5100.78
446_C462_L0.5100.78
619_E651_G0.5090.78
258_A261_Y0.5090.78
215_E218_L0.5070.78
341_V401_S0.5070.78
170_Q173_L0.5070.78
229_L233_P0.5060.78
229_L314_V0.5060.78
258_A262_G0.5060.78
300_S303_L0.5050.78
157_G170_Q0.5050.78
623_L645_I0.5040.77
628_Q632_T0.5040.77
507_N563_E0.5040.77
240_I244_N0.5040.77
213_K218_L0.5030.77
189_V193_P0.5030.77
395_E410_N0.5030.77
499_R531_M0.5030.77
656_A671_S0.5020.77
513_A581_F0.5010.77
291_Y314_V0.5010.77
210_K217_A0.5000.77
331_Y343_A0.5000.77
318_R322_V0.5000.77
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  
4rnhA 2 0.5408 100 0.343 Contact Map
4j40A 2 0.3333 100 0.355 Contact Map
3pjxA 1 0.5435 100 0.368 Contact Map
3gfzA 2 0.4926 100 0.46 Contact Map
4hjfA 1 0.3454 100 0.486 Contact Map
3sy8A 6 0.5234 100 0.56 Contact Map
4hu4A 1 0.3266 100 0.563 Contact Map
4kieA 1 0.3454 100 0.564 Contact Map
2r6oA 2 0.34 100 0.567 Contact Map
4rniA 2 0.336 100 0.571 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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