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zinc xport truncate

ID: 1516637409 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 343 (335)
Sequences: 1638 (1040.7)
Seq/Len: 4.890
Nf(neff/√len): 56.9

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: 4.890).

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
61_I287_L2.6931.00
69_F82_A2.1861.00
20_T260_Y2.0281.00
59_N219_T1.9871.00
16_F20_T1.9281.00
25_A228_F1.9211.00
227_E231_E1.8591.00
84_A277_I1.7811.00
81_K280_A1.7511.00
316_F320_N1.7321.00
65_I85_V1.7171.00
17_L21_I1.7141.00
194_D201_D1.7000.99
330_I334_T1.6920.99
227_E230_H1.6820.99
168_E172_C1.6630.99
194_D227_E1.6190.99
47_F322_G1.5910.99
243_M251_F1.5670.99
326_G330_I1.5600.99
254_L257_C1.5580.99
91_L281_L1.5530.99
320_N324_L1.5110.99
27_L256_A1.5060.98
84_A87_G1.4990.98
16_F19_V1.4950.98
63_Q226_E1.4870.98
227_E286_F1.4860.98
68_A280_A1.4800.98
227_E234_D1.4800.98
332_L336_Y1.4650.98
201_D227_E1.4390.98
84_A281_L1.4360.98
216_G229_P1.4350.98
114_F117_D1.4210.98
17_L220_S1.4200.98
317_M321_A1.4060.97
231_E286_F1.4030.97
217_L221_I1.3880.97
230_H286_F1.3840.97
62_F334_T1.3810.97
198_N227_E1.3770.97
223_I236_V1.3750.97
244_S247_Q1.3580.97
66_P82_A1.3560.96
22_I63_Q1.3330.96
89_F291_L1.3320.96
234_D286_F1.3290.96
321_A324_L1.3240.96
201_D259_C1.3230.96
203_L211_L1.3180.96
219_T230_H1.3130.96
194_D197_H1.2960.95
194_D231_E1.2940.95
204_A219_T1.2860.95
117_D122_Q1.2760.95
113_H117_D1.2700.94
22_I201_D1.2500.94
289_I294_M1.2500.94
198_N229_P1.2450.94
198_N216_G1.2410.93
230_H234_D1.2400.93
128_P131_L1.2390.93
33_T235_F1.2260.93
112_T115_G1.2230.93
32_L36_I1.2210.93
269_V274_A1.2150.93
64_L232_L1.2130.92
198_N255_S1.2120.92
18_S209_C1.2110.92
207_A233_G1.2110.92
231_E234_D1.2100.92
17_L267_I1.2060.92
195_A254_L1.2050.92
197_H202_G1.2020.92
21_I98_M1.1950.92
36_I41_F1.1930.92
17_L25_A1.1920.92
64_L223_I1.1900.91
15_G222_A1.1890.91
194_D230_H1.1800.91
206_G267_I1.1790.91
90_Y323_M1.1680.90
53_I64_L1.1670.90
229_P235_F1.1650.90
193_C201_D1.1640.90
234_D238_L1.1610.90
56_L296_P1.1580.90
198_N231_E1.1570.90
26_S29_G1.1560.90
191_T251_F1.1550.90
74_K257_C1.1540.90
282_A286_F1.1500.90
194_D234_D1.1500.90
15_G56_L1.1490.89
7_S10_E1.1430.89
201_D230_H1.1420.89
252_N280_A1.1410.89
21_I220_S1.1380.89
30_L194_D1.1360.89
242_G318_I1.1350.89
59_N226_E1.1280.88
231_E235_F1.1250.88
104_K107_G1.1220.88
187_A251_F1.1190.88
150_G153_H1.1150.88
57_F290_S1.1130.87
208_S211_L1.1130.87
87_G94_F1.1100.87
219_T231_E1.1090.87
67_E70_G1.1090.87
64_L203_L1.1090.87
94_F98_M1.1060.87
204_A222_A1.1040.87
108_Q111_H1.1020.87
197_H226_E1.1010.87
237_I241_A1.0990.87
203_L278_I1.0970.86
82_A297_E1.0960.86
164_D168_E1.0950.86
56_L201_D1.0920.86
55_T230_H1.0910.86
165_G169_P1.0890.86
18_S206_G1.0890.86
201_D229_P1.0860.86
52_A225_C1.0810.85
91_L321_A1.0810.85
126_H133_A1.0790.85
231_E260_Y1.0780.85
191_T231_E1.0730.85
136_G147_E1.0730.85
231_E237_I1.0710.85
94_F325_T1.0710.85
12_W16_F1.0680.84
59_N63_Q1.0640.84
227_E255_S1.0600.84
318_I322_G1.0570.83
227_E237_I1.0550.83
290_S293_D1.0550.83
216_G227_E1.0510.83
140_Y145_V1.0510.83
24_L91_L1.0500.83
279_F285_M1.0500.83
169_P172_C1.0480.83
89_F287_L1.0470.83
201_D207_A1.0460.83
110_G113_H1.0460.83
52_A237_I1.0450.83
234_D259_C1.0440.82
205_I268_L1.0410.82
116_N119_F1.0390.82
127_Q131_L1.0390.82
60_A255_S1.0380.82
83_V328_T1.0350.82
227_E235_F1.0290.81
289_I293_D1.0260.81
252_N255_S1.0250.81
42_P295_F1.0220.81
114_F118_N1.0210.80
99_L189_M1.0180.80
52_A59_N1.0180.80
66_P70_G1.0180.80
141_A144_A1.0170.80
222_A225_C1.0150.80
265_F269_V1.0120.80
58_S63_Q1.0110.80
225_C230_H1.0100.79
96_E275_P1.0060.79
148_A152_I1.0050.79
56_L227_E1.0020.79
104_K108_Q1.0020.79
275_P281_L1.0000.79
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  
4zw9A1021.90.959Contact Map
4j05A20.446119.50.96Contact Map
3mp7A10.189514.50.962Contact Map
4pypA10.27712.70.963Contact Map
2jlnA10.303212.20.964Contact Map
3b9wA10.349911.80.964Contact Map
3rlbA20.376110.40.965Contact Map
4tkrA20.38789.10.966Contact Map
2zy9A20.21289.10.966Contact Map
4oo9A10.30038.60.966Contact 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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