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ZntA

ID: 1502121953 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 732 (687)
Sequences: 9179 (5622.7)
Seq/Len: 13.361
Nf(neff/√len): 214.5

HHblits Results: (2016_02)
Sequences per length for each position, BEFORE the coverage/gap filter was applied

Legend: Dots above the red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len (which after applying the coverage filter is at: 13.361).

Sequences per length for each position, AFTER the coverage/gap filter was applied
Legend: If visible, the positions blocked in grey are regions that have > 75% gaps and were automatically trimmed and excluded in the GREMLIN analysis.

Trim query Generate MSA using: Filter MSA GREMLIN
Start: End: E-value: Iterations: Coverage: Remove gaps: Prior:

GREMLIN Results:
Residue pairs sorted by coevolution strength:

Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] covarying residues with sequence seperation > 3. The i and j are positions as given in the input sequence.

ij Scaled score Prob
587_P591_A4.9731.00
469_V508_A4.4371.00
157_I195_L4.3001.00
280_A313_V4.1531.00
613_A616_K3.7901.00
274_K316_E3.7011.00
499_R507_E3.6941.00
587_P604_G3.6191.00
609_D612_K3.4201.00
260_V314_T3.3151.00
564_D664_H3.2001.00
583_T590_A3.1891.00
618_N638_A3.1741.00
450_A540_Q3.1311.00
260_V276_L3.0321.00
497_S509_Q3.0211.00
430_V624_A3.0181.00
573_N600_E2.9621.00
547_R552_L2.9431.00
448_V484_E2.9031.00
468_A493_P2.8931.00
277_S314_T2.8321.00
280_A308_S2.8231.00
271_A317_V2.7851.00
513_E548_N2.7641.00
462_L553_G2.7451.00
594_A601_F2.7341.00
238_T249_E2.6991.00
431_T621_A2.6821.00
240_T249_E2.6621.00
448_V555_I2.6361.00
507_E514_R2.6271.00
615_T638_A2.5871.00
302_V315_L2.5621.00
260_V316_E2.5461.00
602_K613_A2.5451.00
240_T267_G2.5361.00
269_L282_F2.5331.00
591_A595_G2.5311.00
411_A674_L2.5001.00
624_A643_I2.4721.00
566_A570_S2.4501.00
241_R248_E2.3671.00
443_V560_T2.3201.00
501_L522_K2.2991.00
441_L597_L2.2811.00
443_V563_A2.2801.00
255_L271_A2.2621.00
575_L673_E2.2491.00
431_T622_P2.2461.00
275_L313_V2.2231.00
276_L316_E2.1861.00
531_L534_E2.1611.00
681_N727_R2.1551.00
467_A485_A2.0931.00
243_R248_E2.0901.00
543_V557_L2.0871.00
568_A669_V2.0821.00
365_V383_K2.0741.00
517_I545_V2.0671.00
647_S663_N2.0491.00
434_A582_L2.0361.00
168_A192_I2.0311.00
331_K335_E1.9901.00
582_L613_A1.9891.00
581_I590_A1.9831.00
138_M208_L1.9631.00
349_R353_I1.9581.00
687_T691_G1.9571.00
242_L314_T1.9521.00
567_T666_R1.9501.00
542_V554_I1.9371.00
297_A300_D1.9241.00
465_L515_V1.9231.00
591_A601_F1.9231.00
63_A83_F1.9101.00
515_V547_R1.8891.00
165_Y169_R1.8701.00
317_V320_E1.8671.00
169_R173_R1.8661.00
706_G709_L1.8541.00
573_N579_G1.8521.00
618_N640_A1.8461.00
449_T540_Q1.8431.00
466_A545_V1.8391.00
435_F441_L1.8381.00
578_K621_A1.8381.00
612_K615_T1.8311.00
275_L282_F1.8241.00
569_I579_G1.8241.00
545_V553_G1.8211.00
532_I544_L1.8151.00
262_E314_T1.8101.00
414_R670_Q1.8091.00
160_T168_A1.8081.00
284_E296_R1.8071.00
566_A596_E1.8011.00
583_T603_A1.8001.00
434_A617_L1.7931.00
255_L261_I1.7781.00
611_V638_A1.7641.00
261_I315_L1.7611.00
434_A614_V1.7571.00
192_I196_F1.7551.00
432_Q580_V1.7271.00
366_T384_G1.7231.00
241_R250_V1.7181.00
360_A364_L1.7181.00
570_S574_A1.7131.00
662_H667_G1.7091.00
643_I668_L1.7091.00
443_V447_R1.7051.00
453_P553_G1.6971.00
274_K318_L1.6911.00
361_V701_L1.6801.00
134_L163_G1.6741.00
287_L303_P1.6731.00
615_T618_N1.6691.00
571_E673_E1.6681.00
509_Q514_R1.6551.00
561_L597_L1.6461.00
578_K600_E1.6451.00
535_L556_A1.6271.00
410_A414_R1.6201.00
282_F313_V1.6181.00
273_G315_L1.6171.00
479_Q483_R1.6141.00
283_D309_V1.6101.00
433_V624_A1.6051.00
470_E478_A1.6051.00
459_E488_A1.6041.00
564_D666_R1.5971.00
461_E464_T1.5961.00
507_E516_L1.5931.00
403_A681_N1.5891.00
59_C62_C1.5771.00
681_N725_A1.5761.00
403_A725_A1.5541.00
251_A254_S1.5501.00
602_K616_K1.5471.00
612_K616_K1.5411.00
241_R259_D1.5371.00
55_S110_S1.5361.00
534_E538_A1.5351.00
188_S192_I1.5291.00
279_F295_E1.5291.00
474_T500_A1.5241.00
724_N727_R1.5221.00
513_E547_R1.5211.00
189_V359_M1.5181.00
567_T571_E1.5171.00
481_I555_I1.5151.00
135_I208_L1.5131.00
575_L676_R1.5071.00
501_L507_E1.5011.00
262_E312_L1.4931.00
516_L546_V1.4931.00
279_F297_A1.4891.00
441_L561_L1.4841.00
544_L551_V1.4841.00
78_Q91_D1.4781.00
301_K319_S1.4751.00
281_S295_E1.4741.00
136_V140_I1.4621.00
432_Q621_A1.4601.00
498_Q506_I1.4531.00
469_V506_I1.4501.00
448_V557_L1.4421.00
54_V57_M1.4401.00
407_G678_T1.4351.00
168_A188_S1.4331.00
501_L504_S1.4311.00
462_L545_V1.4271.00
446_P477_L1.4261.00
515_V545_V1.4211.00
504_S606_L1.4201.00
495_A508_A1.4181.00
429_R622_P1.4040.99
519_A522_K1.4010.99
449_T558_Q1.4000.99
484_E488_A1.3980.99
301_K318_L1.3950.99
564_D568_A1.3910.99
435_F668_L1.3880.99
515_V552_L1.3800.99
435_F579_G1.3770.99
516_L522_K1.3750.99
418_I658_A1.3740.99
263_V315_L1.3690.99
258_G316_E1.3680.99
261_I317_V1.3640.99
366_T370_P1.3520.99
444_G559_D1.3480.99
590_A601_F1.3480.99
321_P324_S1.3430.99
637_K655_T1.3350.99
274_K301_K1.3330.99
483_R486_Q1.3300.99
274_K299_G1.3290.99
466_A555_I1.3270.99
684_Q724_N1.3260.99
468_A492_I1.3200.99
364_L368_V1.3180.99
277_S298_T1.3150.99
458_S461_E1.3140.99
265_A280_A1.3140.99
707_L711_V1.3120.99
452_H535_L1.3120.99
198_G201_A1.3110.99
518_C522_K1.3080.99
70_V100_V1.3050.99
587_P603_A1.3010.99
571_E574_A1.2990.99
181_F185_T1.2870.99
447_R560_T1.2860.99
679_H683_R1.2860.99
426_Q622_P1.2700.99
239_A270_P1.2630.99
275_L300_D1.2620.99
358_I697_L1.2540.99
428_G679_H1.2480.99
257_P320_E1.2450.98
466_A517_I1.2430.98
575_L672_I1.2400.98
390_I696_F1.2390.98
469_V517_I1.2380.98
453_P462_L1.2370.98
587_P601_F1.2350.98
427_L641_I1.2340.98
468_A495_A1.2330.98
447_R483_R1.2300.98
286_A306_A1.2250.98
312_L472_G1.2210.98
705_T709_L1.2200.98
561_L593_I1.2190.98
427_L671_M1.2160.98
677_A680_A1.2150.98
191_A207_L1.2150.98
383_K386_T1.2140.98
49_R91_D1.2120.98
451_I484_E1.2110.98
353_I357_A1.2060.98
582_L605_L1.2030.98
130_P166_P1.2000.98
219_W223_R1.1990.98
410_A413_R1.1980.98
241_R261_I1.1960.98
571_E575_L1.1920.98
261_I271_A1.1920.98
445_K483_R1.1900.98
420_G657_D1.1880.98
681_N684_Q1.1850.98
594_A599_L1.1800.98
275_L278_P1.1750.98
250_V254_S1.1730.98
464_T493_P1.1720.98
464_T468_A1.1710.98
76_V100_V1.1700.97
469_V515_V1.1680.97
247_R262_E1.1640.97
427_L672_I1.1630.97
160_T203_A1.1590.97
171_A181_F1.1590.97
608_E612_K1.1570.97
102_S106_K1.1570.97
101_E111_L1.1560.97
70_V88_L1.1510.97
160_T191_A1.1510.97
103_A107_A1.1510.97
265_A500_A1.1480.97
540_Q556_A1.1470.97
164_L207_L1.1470.97
535_L540_Q1.1460.97
605_L609_D1.1450.97
240_T264_A1.1410.97
581_I599_L1.1380.97
359_M363_L1.1350.97
303_P306_A1.1260.97
57_M66_V1.1240.97
575_L669_V1.1240.97
160_T192_I1.1220.97
230_A413_R1.1200.96
644_A656_A1.1170.96
435_F572_L1.1140.96
153_Q195_L1.1130.96
537_S588_R1.1130.96
287_L325_A1.1100.96
224_A409_A1.1070.96
451_I555_I1.1070.96
263_V269_L1.1000.96
677_A731_R1.0990.96
602_K605_L1.0970.96
586_N589_A1.0840.96
261_I270_P1.0810.95
252_I255_L1.0770.95
265_A474_T1.0750.95
565_A569_I1.0740.95
452_H531_L1.0730.95
172_L176_K1.0730.95
477_L557_L1.0720.95
263_V270_P1.0690.95
426_Q640_A1.0690.95
195_L198_G1.0660.95
615_T619_Q1.0640.95
137_M140_I1.0620.95
302_V313_V1.0610.95
471_Q486_Q1.0600.95
569_I573_N1.0590.95
571_E669_V1.0590.95
255_L317_V1.0580.95
571_E666_R1.0550.95
672_I676_R1.0550.95
567_T570_S1.0540.95
275_L302_V1.0530.95
580_V613_A1.0520.95
427_L430_V1.0520.95
328_R331_K1.0460.94
296_R300_D1.0450.94
320_E324_S1.0450.94
520_A544_L1.0450.94
304_A324_S1.0440.94
426_Q429_R1.0410.94
159_T204_A1.0410.94
134_L208_L1.0380.94
243_R246_E1.0370.94
362_A388_L1.0260.94
604_G609_D1.0220.93
461_E465_L1.0180.93
463_L484_E1.0160.93
496_E509_Q1.0120.93
345_R349_R1.0120.93
430_V622_P1.0110.93
265_A308_S1.0090.93
504_S521_G1.0090.93
449_T535_L1.0050.93
175_I185_T1.0030.93
495_A498_Q1.0020.92
264_A267_G1.0020.92
319_S323_A1.0000.92
Legend: Only predictions with Scaled Score > 1 are listed. For all 3L/2 predictions, click on one of the links below.
Prob = P(contact | scaled_score, seq/len).
Scaled Score = (raw_score/average(raw_scores)).
NEW Features
HHsearch Results: (06Aug15)
GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled Score > 1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-position alignment confidence. Inter oligomeric contacts in the pdb are in shades of red.
PDB M Cov P(%) HHΔ  
4umwA10.82241000.23Contact Map
3j09A20.9291000.287Contact Map
4bbjA10.83471000.293Contact Map
3j08A20.82651000.352Contact Map
1mhsA20.9031000.532Contact Map
3b8cA20.82651000.533Contact Map
3ar4A10.84561000.568Contact Map
3ixzA10.86611000.568Contact Map
2zxeA10.85931000.568Contact Map
3skxA10.35251000.791Contact Map
M = number of chains, if homo-oligomer
Cov = coverage of hit
P(%) = probability

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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