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OPENSEQ.org

cul1_human

ID: 1433420729 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 651 (616)
Sequences: 640 (470.9)
Seq/Len: 1.039
Nf(neff/√len): 19.0

HHblits Results: (2013_03)
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: 1.039).

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
593_Q605_L4.9391.00
245_E301_R2.8741.00
227_E247_R2.7271.00
590_I619_V2.5891.00
568_G588_M2.5100.99
247_R250_E2.4870.99
272_E308_R2.2300.98
23_M27_T2.2190.98
433_F476_C2.1340.97
169_K174_E2.0790.97
354_H358_N2.0710.97
181_I590_I2.0350.96
355_K428_Q1.9730.95
554_H557_R1.9580.95
426_L468_M1.9500.95
172_N223_F1.9260.95
216_F263_T1.9250.94
606_T613_M1.8930.94
569_E582_Q1.8470.93
212_F216_F1.8380.93
320_L324_I1.7930.91
407_D411_K1.7660.90
258_Y267_L1.7650.90
550_Y557_R1.7590.90
7_G23_M1.7510.90
403_A445_F1.7360.89
170_E258_Y1.7270.89
584_S609_T1.6990.88
213_E263_T1.6740.87
587_Q595_N1.6670.87
236_P239_E1.6550.86
298_D301_R1.6550.86
23_M26_Y1.6500.86
500_Q553_R1.6490.86
228_S279_H1.6270.85
250_E254_R1.6080.84
348_Q352_D1.5920.83
477_G481_T1.5660.82
99_Y187_S1.5650.82
106_Y143_A1.5440.80
171_R251_E1.5330.80
248_L271_C1.5300.80
443_Q447_A1.5220.79
99_Y147_W1.5210.79
168_E172_N1.5160.79
241_M302_M1.5090.78
361_V375_L1.5080.78
10_Q15_Q1.5000.78
29_V33_C1.4960.77
418_E468_M1.4920.77
208_Y213_E1.4890.77
612_K615_I1.4830.77
99_Y121_N1.4790.76
159_V163_V1.4700.76
164_L217_L1.4660.75
174_E402_L1.4600.75
208_Y263_T1.4580.75
447_A484_L1.4580.75
486_R524_S1.4520.74
22_Y26_Y1.4490.74
586_F605_L1.4490.74
220_T224_Y1.4480.74
295_K298_D1.4450.74
491_I496_D1.4440.74
208_Y217_L1.4330.73
231_F235_N1.4320.73
536_P581_L1.4270.73
22_Y27_T1.4240.72
453_R465_E1.4040.71
263_T267_L1.3970.70
114_N121_N1.3790.69
218_A221_E1.3760.69
451_A526_P1.3750.69
110_S143_A1.3590.67
481_T485_Q1.3560.67
158_Q332_I1.3490.66
459_S468_M1.3470.66
7_G27_T1.3460.66
591_L623_L1.3430.66
221_E273_Q1.3360.65
473_K481_T1.3360.65
170_E178_T1.3250.64
347_V602_V1.3210.64
487_M525_W1.3160.64
403_A449_M1.3110.63
480_Y485_Q1.3100.63
14_R105_D1.3060.63
170_E254_R1.3050.63
30_Y438_D1.3000.62
378_A561_W1.2900.61
294_D356_K1.2900.61
426_L473_K1.2800.60
346_Y587_Q1.2750.60
442_F453_R1.2660.59
302_M371_F1.2660.59
590_I605_L1.2660.59
459_S463_D1.2580.58
443_Q475_A1.2500.58
618_Q622_I1.2490.58
26_Y31_N1.2480.58
163_V166_L1.2460.57
613_M617_A1.2460.57
243_K316_L1.2450.57
230_E234_Q1.2440.57
269_R272_E1.2440.57
468_M473_K1.2390.57
379_C447_A1.2340.56
7_G25_L1.2340.56
433_F461_S1.2320.56
328_G382_F1.2260.56
463_D473_K1.2250.55
583_A595_N1.2230.55
501_F515_F1.2200.55
147_W376_D1.2200.55
160_T188_Y1.2160.55
412_K533_F1.2150.55
21_R24_E1.2150.55
406_C429_V1.2150.55
66_L77_K1.2130.54
342_D436_I1.2100.54
220_T267_L1.2100.54
450_L473_K1.2090.54
584_S587_Q1.2080.54
364_A451_A1.2030.53
10_Q120_L1.2030.53
572_T595_N1.2000.53
433_F481_T1.1990.53
590_I616_L1.1950.53
445_F449_M1.1920.52
422_L436_I1.1890.52
455_V485_Q1.1850.52
583_A602_V1.1810.51
4_L11_V1.1810.51
147_W379_C1.1770.51
255_V302_M1.1750.51
444_K449_M1.1740.51
148_R181_I1.1730.51
455_V458_N1.1700.50
519_V598_D1.1670.50
583_A591_L1.1670.50
216_F227_E1.1660.50
461_S464_A1.1650.50
488_F554_H1.1640.50
600_Y605_L1.1620.50
597_E600_Y1.1620.50
20_S27_T1.1590.49
442_F465_E1.1590.49
273_Q277_E1.1550.49
271_C411_K1.1550.49
412_K502_K1.1520.49
357_Y588_M1.1500.48
584_S616_L1.1490.48
99_Y106_Y1.1490.48
375_L432_V1.1490.48
376_D455_V1.1480.48
283_F375_L1.1460.48
148_R212_F1.1460.48
174_E405_Y1.1440.48
376_D444_K1.1440.48
11_V27_T1.1430.48
273_Q570_L1.1370.47
151_L469_I1.1340.47
143_A566_S1.1330.47
147_W187_S1.1320.47
147_W353_V1.1320.47
619_V622_I1.1320.47
452_K456_H1.1310.47
275_L346_Y1.1270.46
615_I618_Q1.1270.46
473_K485_Q1.1260.46
303_Y520_L1.1250.46
220_T274_V1.1250.46
290_L430_M1.1230.46
72_L117_C1.1220.46
447_A562_L1.1200.46
421_E586_F1.1180.45
238_T458_N1.1120.45
434_K475_A1.1110.45
465_E472_L1.1090.45
170_E173_G1.1070.44
240_Y472_L1.1060.44
463_D601_T1.1050.44
273_Q278_K1.1050.44
438_D445_F1.1020.44
454_L487_M1.1020.44
109_S579_Y1.1020.44
116_I406_C1.1020.44
273_Q605_L1.1000.44
159_V501_F1.0980.44
398_S522_S1.0970.44
167_I515_F1.0960.43
410_L516_S1.0950.43
213_E217_L1.0940.43
210_E302_M1.0910.43
115_G118_A1.0910.43
426_L450_L1.0910.43
112_V187_S1.0890.43
177_N383_I1.0880.43
288_Q326_N1.0860.42
454_L520_L1.0860.42
587_Q591_L1.0840.42
521_S524_S1.0840.42
454_L550_Y1.0830.42
437_E447_A1.0820.42
357_Y438_D1.0810.42
324_I405_Y1.0790.42
218_A519_V1.0750.41
222_R436_I1.0740.41
7_G11_V1.0730.41
1_W11_V1.0700.41
2_D5_R1.0680.41
461_S473_K1.0670.41
7_G26_Y1.0650.41
536_P557_R1.0630.40
581_L623_L1.0630.40
300_G366_N1.0610.40
65_G139_I1.0610.40
335_C455_V1.0600.40
452_K473_K1.0580.40
31_N467_S1.0580.40
479_E486_R1.0560.40
305_L365_F1.0550.40
303_Y355_K1.0540.40
232_L617_A1.0530.39
380_G476_C1.0530.39
34_T65_G1.0520.39
427_N469_I1.0510.39
242_K297_E1.0510.39
276_I306_V1.0500.39
600_Y608_S1.0500.39
139_I142_L1.0490.39
246_A250_E1.0480.39
148_R625_K1.0480.39
141_S480_Y1.0460.39
344_K403_A1.0460.39
446_Y469_I1.0460.39
472_L476_C1.0450.39
76_L93_E1.0440.39
291_L386_N1.0430.39
568_G583_A1.0420.39
149_D457_Q1.0420.39
422_L495_K1.0400.38
467_S544_Q1.0400.38
10_Q22_Y1.0400.38
354_H402_L1.0400.38
408_S423_E1.0380.38
1_W8_I1.0380.38
404_R445_F1.0370.38
409_L587_Q1.0360.38
181_I469_I1.0350.38
219_D222_R1.0340.38
223_F552_S1.0340.38
187_S455_V1.0320.38
267_L293_A1.0320.38
212_F308_R1.0320.38
475_A566_S1.0310.38
487_M490_D1.0310.38
163_V330_A1.0300.37
12_Y110_S1.0300.37
180_L570_L1.0290.37
501_F523_G1.0290.37
213_E266_E1.0280.37
444_K447_A1.0280.37
515_F592_L1.0270.37
92_D297_E1.0270.37
188_Y236_P1.0260.37
30_Y115_G1.0260.37
129_C133_R1.0250.37
21_R27_T1.0230.37
322_T330_A1.0220.37
188_Y436_I1.0220.37
147_W343_P1.0220.37
591_L595_N1.0210.37
488_F556_G1.0200.37
603_Q607_D1.0190.36
531_C611_I1.0180.36
170_E272_E1.0180.36
354_H406_C1.0180.36
70_K78_N1.0150.36
11_V20_S1.0140.36
301_R479_E1.0140.36
1_W4_L1.0140.36
163_V484_L1.0140.36
27_T353_V1.0120.36
8_I27_T1.0120.36
6_A13_T1.0110.36
540_E544_Q1.0110.36
461_S476_C1.0090.36
386_N399_P1.0080.36
227_E243_K1.0080.36
120_L159_V1.0070.35
227_E556_G1.0060.35
332_I587_Q1.0060.35
323_H585_T1.0050.35
595_N623_L1.0050.35
144_L598_D1.0040.35
401_L404_R1.0040.35
397_K556_G1.0040.35
419_E461_S1.0030.35
74_E163_V1.0030.35
28_H31_N1.0020.35
167_I299_L1.0020.35
20_S23_M1.0020.35
32_Y143_A1.0020.35
399_P523_G1.0010.35
618_Q621_Q1.0010.35
292_D316_L1.0010.35
159_V357_Y1.0010.35
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: (31Jan15)
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  
1ldjA10.94621000.113Contact Map
2hyeC10.90021000.178Contact Map
4ap2B10.51461000.527Contact Map
4eozB20.43781000.555Contact Map
4a64A40.50841000.567Contact Map
2wzkA10.54841000.598Contact Map
3dplC10.38861000.602Contact Map
2ethA20.142989.20.97Contact Map
3hsrA40.136788.90.97Contact Map
3tgnA20.14988.70.97Contact 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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