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OPENSEQ.org

BSU27600jack5plus400 SpoT

ID: 1422435593 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 50% gaps before running GREMLIN.
Length: 726 (715)
Sequences: 1019 (713.6)
Seq/Len: 1.425
Nf(neff/√len): 26.7

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: 1.425).

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 > 50% 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
89_R94_D3.8871.00
64_M137_L3.6801.00
431_N445_D3.4671.00
430_V435_V3.4301.00
26_V69_V3.3571.00
710_V722_V3.3511.00
415_Y423_N3.2771.00
411_I465_L3.0271.00
656_I713_I2.9951.00
78_V85_L2.8881.00
223_V283_I2.8031.00
495_V534_V2.5521.00
148_R184_E2.5401.00
28_H91_E2.5161.00
661_R667_E2.4331.00
269_I328_F2.4121.00
235_E328_F2.3620.99
466_A475_I2.3490.99
150_L192_Y2.3300.99
226_R229_D2.3020.99
25_M70_A2.2920.99
67_S95_E2.2800.99
233_K271_K2.2120.99
272_S275_D2.1710.99
155_P158_Q2.1180.99
255_K260_I2.0750.98
271_K328_F2.0140.98
32_F83_V1.9890.98
215_Y315_G1.9880.98
237_S331_H1.9790.98
419_S423_N1.9780.98
441_L447_V1.9380.97
654_I710_V1.9360.97
421_I451_T1.9130.97
14_T26_V1.8600.96
78_V88_L1.8430.96
468_T471_A1.8270.96
218_N317_K1.7810.95
429_K448_E1.7690.94
150_L161_I1.7630.94
205_M243_I1.7440.94
59_L68_T1.7250.93
204_L257_F1.7230.93
488_I532_A1.7180.93
163_N167_E1.7130.93
201_I243_I1.7070.93
155_P159_R1.7060.93
76_D80_D1.6930.93
677_T705_H1.6860.92
394_V441_L1.6570.92
56_A69_V1.6350.91
323_V466_A1.6090.90
154_P157_K1.6090.90
80_D146_N1.6060.90
526_N529_D1.5910.89
43_K153_L1.5860.89
80_D105_K1.5770.89
661_R664_L1.5540.88
52_P146_N1.5400.87
83_V87_E1.5350.87
524_F533_A1.5340.87
79_E146_N1.5330.87
215_Y316_P1.5280.87
219_V321_L1.5230.86
270_V279_V1.5180.86
147_M185_L1.5150.86
85_L101_D1.5080.86
76_D79_E1.5060.85
408_S713_I1.5040.85
658_G664_L1.5040.85
656_I719_I1.4960.85
672_V696_M1.4830.84
430_V439_Y1.4810.84
452_S455_S1.4810.84
698_I709_V1.4790.84
105_K146_N1.4690.83
87_E90_E1.4690.83
672_V679_I1.4630.83
611_T617_S1.4600.83
146_N149_T1.4570.83
284_H311_T1.4530.83
410_P428_A1.4520.82
416_R470_Q1.4390.82
271_K275_D1.4380.82
69_V72_G1.4210.81
25_M28_H1.4170.80
76_D146_N1.4130.80
158_Q192_Y1.4100.80
194_N197_Q1.4080.80
59_L72_G1.4040.79
86_D90_E1.4000.79
35_K38_E1.3940.79
664_L667_E1.3920.79
209_R240_P1.3910.79
392_V443_T1.3860.78
75_H79_E1.3850.78
147_M150_L1.3700.77
410_P430_V1.3680.77
14_T18_L1.3670.77
145_H149_T1.3660.77
64_M68_T1.3660.77
407_G440_Q1.3660.77
42_R76_D1.3640.77
42_R145_H1.3570.76
393_F717_P1.3540.76
105_K142_D1.3540.76
274_K278_A1.3500.76
439_Y442_K1.3470.75
80_D104_T1.3450.75
488_I528_D1.3440.75
392_V439_Y1.3400.75
396_T402_I1.3400.75
42_R80_D1.3360.75
682_V696_M1.3360.75
80_D145_H1.3300.74
37_H146_N1.3250.74
663_G678_N1.3220.73
79_E149_T1.3210.73
666_N669_L1.3190.73
66_P70_A1.3190.73
231_H468_T1.3190.73
37_H48_Y1.3180.73
52_P80_D1.3170.73
42_R146_N1.3150.73
419_S595_S1.3100.73
76_D145_H1.3050.72
216_L238_G1.3040.72
80_D149_T1.3020.72
51_H145_H1.3000.72
76_D165_T1.2990.72
98_M131_Q1.2980.72
499_I618_V1.2960.71
616_V638_V1.2930.71
78_V101_D1.2920.71
183_W242_H1.2920.71
217_Q221_E1.2860.71
224_K228_A1.2860.71
42_R48_Y1.2740.69
183_W240_P1.2720.69
37_H42_R1.2700.69
142_D146_N1.2690.69
51_H75_H1.2690.69
17_Y63_E1.2680.69
406_S468_T1.2670.69
76_D104_T1.2660.69
159_R189_S1.2650.69
672_V698_I1.2610.68
76_D149_T1.2570.68
460_L479_F1.2550.68
605_E621_A1.2480.67
55_V142_D1.2420.67
598_C623_C1.2400.66
408_S605_E1.2370.66
183_W209_R1.2350.66
42_R75_H1.2330.66
31_A34_S1.2320.66
79_E142_D1.2310.66
440_Q467_Q1.2290.65
205_M257_F1.2230.65
279_V282_V1.2230.65
69_V260_I1.2220.65
52_P79_E1.2180.64
52_P149_T1.2140.64
76_D105_K1.2140.64
428_A449_I1.2120.64
42_R105_K1.2100.64
267_R344_Y1.2090.64
127_V388_F1.2080.64
200_R204_L1.2070.63
654_I722_V1.2050.63
81_T146_N1.2040.63
58_I184_E1.2020.63
52_P76_D1.1990.63
58_I148_R1.1990.63
104_T146_N1.1980.63
208_K211_E1.1970.62
227_L236_I1.1950.62
157_K161_I1.1950.62
75_H146_N1.1910.62
702_N705_H1.1900.62
37_H80_D1.1870.61
45_G51_H1.1850.61
225_E229_D1.1850.61
75_H145_H1.1840.61
283_I313_V1.1830.61
281_G284_H1.1820.61
597_C619_H1.1820.61
223_V323_V1.1810.61
79_E105_K1.1730.60
37_H149_T1.1720.60
32_F91_E1.1710.60
71_A99_L1.1700.60
277_Y284_H1.1680.60
75_H149_T1.1660.59
52_P105_K1.1640.59
225_E417_I1.1620.59
42_R79_E1.1610.59
598_C619_H1.1590.59
241_K249_K1.1580.59
37_H76_D1.1530.58
87_E91_E1.1530.58
425_T437_L1.1530.58
683_S696_M1.1520.58
105_K149_T1.1510.58
79_E145_H1.1500.58
619_H623_C1.1500.58
197_Q200_R1.1490.58
222_E287_W1.1480.58
106_L486_E1.1460.57
37_H75_H1.1460.57
33_A49_I1.1450.57
13_R61_D1.1400.57
581_G584_V1.1350.56
79_E104_T1.1340.56
48_Y146_N1.1340.56
153_L157_K1.1320.56
322_E344_Y1.1320.56
277_Y280_L1.1310.56
42_R149_T1.1300.56
80_D142_D1.1280.56
26_V158_Q1.1260.55
42_R52_P1.1220.55
30_C53_I1.1220.55
37_H104_T1.1190.55
220_I224_K1.1150.54
52_P145_H1.1150.54
59_L103_V1.1120.54
84_T97_A1.1100.54
81_T149_T1.1090.54
492_R531_Y1.1070.54
249_K322_E1.1060.53
249_K324_Q1.1050.53
80_D139_K1.1040.53
585_K637_P1.1040.53
665_L682_V1.1040.53
37_H79_E1.1020.53
37_H52_P1.1020.53
249_K345_K1.1010.53
48_Y76_D1.1000.53
75_H80_D1.1000.53
295_K312_T1.0990.53
207_R319_E1.0990.53
324_Q344_Y1.0990.53
388_F480_K1.0980.53
185_L189_S1.0970.53
51_H146_N1.0970.53
124_K135_V1.0970.53
103_V106_L1.0960.52
30_C34_S1.0960.52
267_R324_Q1.0940.52
651_N680_S1.0940.52
500_R584_V1.0940.52
102_G135_V1.0940.52
75_H104_T1.0940.52
275_D278_A1.0910.52
653_D697_S1.0910.52
597_C623_C1.0890.52
607_V626_V1.0880.52
201_I257_F1.0880.52
42_R51_H1.0870.52
48_Y75_H1.0860.51
611_T625_N1.0850.51
280_L284_H1.0850.51
322_E341_H1.0850.51
482_Q485_E1.0850.51
104_T149_T1.0850.51
52_P81_T1.0840.51
290_M601_V1.0820.51
324_Q345_K1.0820.51
150_L158_Q1.0800.51
391_M403_E1.0790.51
162_A189_S1.0790.51
260_I483_R1.0780.51
37_H45_G1.0770.50
190_L243_I1.0770.50
484_K529_D1.0770.50
611_T634_R1.0740.50
85_L88_L1.0740.50
78_V104_T1.0730.50
328_F332_R1.0710.50
672_V677_T1.0690.50
322_E345_K1.0690.50
244_Y248_R1.0680.50
443_T702_N1.0680.50
483_R486_E1.0680.50
584_V664_L1.0640.49
618_V638_V1.0640.49
224_K235_E1.0640.49
203_N207_R1.0630.49
280_L325_I1.0630.49
38_E41_K1.0570.48
77_V368_E1.0570.48
267_R322_E1.0540.48
119_A471_A1.0530.48
260_I690_K1.0520.48
524_F530_M1.0510.48
593_R614_R1.0510.48
220_I266_V1.0500.48
45_G105_K1.0500.48
75_H165_T1.0470.47
138_I174_H1.0470.47
59_L69_V1.0460.47
216_L266_V1.0440.47
293_R312_T1.0430.47
261_Y323_V1.0430.47
105_K145_H1.0400.47
684_G694_I1.0390.47
211_E263_L1.0390.47
159_R323_V1.0390.47
51_H104_T1.0370.46
75_H142_D1.0370.46
48_Y145_H1.0360.46
268_I279_V1.0350.46
150_L162_A1.0350.46
104_T145_H1.0320.46
46_E51_H1.0320.46
52_P75_H1.0310.46
277_Y281_G1.0290.46
48_Y55_V1.0290.46
37_H40_Q1.0280.45
419_S633_S1.0260.45
67_S96_V1.0240.45
6_T54_Q1.0230.45
409_V465_L1.0230.45
654_I696_M1.0230.45
99_L364_R1.0220.45
76_D81_T1.0210.45
119_A387_L1.0200.45
146_N165_T1.0190.45
516_K520_E1.0190.45
62_L336_Y1.0180.44
217_Q220_I1.0170.44
85_L97_A1.0170.44
341_H345_K1.0160.44
99_L138_I1.0140.44
433_K604_D1.0130.44
147_M153_L1.0110.44
270_V275_D1.0100.44
241_K322_E1.0100.44
51_H79_E1.0070.43
37_H145_H1.0060.43
150_L157_K1.0050.43
147_M165_T1.0050.43
609_F634_R1.0030.43
80_D100_V1.0030.43
146_N157_K1.0010.43
42_R142_D1.0010.43
25_M95_E1.0010.43
136_I255_K1.0010.43
151_K191_R1.0000.43
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: (06Sep14)
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  
1vj7A20.46141000.531Contact Map
3l9dA20.25761000.803Contact Map
2be3A20.26451000.837Contact Map
3nqwA20.23971000.848Contact Map
3nr1A20.23551000.851Contact Map
2ekiA10.107499.90.92Contact Map
4ce4c10.304499.70.939Contact Map
1wxqA10.403699.50.945Contact Map
3hvzA60.088299.50.946Contact Map
1wwtA10.119899.30.953Contact 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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