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ID: 1513284939 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 519 (486)
Sequences: 4068 (2176.8)
Seq/Len: 8.370
Nf(neff/√len): 98.7

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: 8.370).

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
257_S275_S4.8251.00
269_D304_R4.4511.00
174_K184_E4.2271.00
50_K85_S3.8381.00
46_V81_T3.6491.00
73_A77_K3.6391.00
268_F301_M3.6301.00
240_H274_A3.5111.00
37_C57_M3.5091.00
239_V257_S3.3811.00
57_M60_A3.3271.00
314_C344_A3.2511.00
265_V297_A3.1641.00
243_R255_I3.1551.00
100_L220_G3.1461.00
293_K372_E3.0091.00
113_K141_D2.8801.00
172_Q184_E2.8681.00
48_T51_E2.8181.00
97_A452_H2.7991.00
127_T182_V2.6271.00
53_I96_V2.5361.00
292_E368_L2.5101.00
71_Y75_T2.4641.00
45_S48_T2.4511.00
175_Q182_V2.4471.00
172_Q186_E2.4431.00
123_K126_A2.4431.00
44_R75_T2.4171.00
442_T448_A2.3971.00
273_E308_A2.3931.00
324_K357_D2.3831.00
128_L145_L2.3191.00
268_F272_L2.2281.00
73_A223_Q2.2141.00
289_I297_A2.2101.00
224_D446_Q2.2061.00
217_L228_V2.2061.00
239_V255_I2.1891.00
254_K450_Q2.1881.00
237_S241_E2.1781.00
299_K342_D2.1501.00
414_G495_D2.0751.00
367_H371_R2.0471.00
46_V78_N2.0421.00
48_T360_L2.0301.00
127_T184_E2.0121.00
256_I277_G2.0101.00
164_V191_L2.0051.00
39_I49_L1.9951.00
212_K216_D1.9771.00
113_K139_K1.9681.00
111_L194_K1.9431.00
126_A142_E1.9361.00
300_M304_R1.9301.00
80_R83_T1.9151.00
347_I370_A1.9031.00
128_L183_T1.8871.00
127_T174_K1.8851.00
130_I171_L1.8841.00
236_A270_E1.8591.00
302_I314_C1.8501.00
151_N154_K1.8401.00
76_I98_V1.8181.00
70_E73_A1.7881.00
215_Q218_K1.7791.00
112_I193_S1.7771.00
60_A79_V1.7751.00
203_A263_E1.7711.00
122_L185_V1.7681.00
417_I497_V1.7651.00
358_Y361_E1.7571.00
161_K170_S1.7261.00
46_V82_A1.7221.00
50_K54_K1.7181.00
237_S240_H1.7161.00
171_L183_T1.7141.00
340_V370_A1.7131.00
62_L76_I1.7111.00
244_K248_E1.7071.00
278_I301_M1.6971.00
221_V253_I1.6771.00
230_A242_V1.6731.00
211_E215_Q1.6641.00
36_I59_V1.6631.00
126_A185_V1.6611.00
51_E54_K1.6601.00
36_I313_I1.6561.00
102_T106_E1.6551.00
214_I218_K1.6451.00
407_A513_M1.6431.00
413_S498_I1.6371.00
53_I82_A1.6301.00
58_N94_R1.6251.00
121_E190_S1.6161.00
76_I223_Q1.6141.00
451_A454_Y1.6091.00
115_S193_S1.5781.00
220_G225_V1.5631.00
214_I241_E1.5481.00
420_T440_A1.5291.00
361_E364_R1.5281.00
323_I351_G1.5231.00
31_R367_H1.5211.00
294_V334_S1.5191.00
256_I313_I1.5071.00
59_V99_A1.5061.00
320_E324_K1.5021.00
67_G72_H1.4901.00
291_A365_M1.4720.99
98_V225_V1.4410.99
37_C60_A1.4360.99
157_E160_S1.4330.99
236_A274_A1.4200.99
218_K222_E1.4190.99
54_K86_F1.4180.99
161_K172_Q1.4150.99
100_L225_V1.4130.99
45_S78_N1.4090.99
160_S202_A1.4030.99
440_A451_A1.4000.99
214_I245_V1.4000.99
364_R368_L1.3650.99
129_K182_V1.3590.99
261_N264_G1.3580.99
55_S364_R1.3550.99
158_V176_K1.3400.99
414_G492_K1.3370.99
252_N446_Q1.3290.99
69_H216_D1.3250.99
50_K82_A1.3170.99
272_L304_R1.3160.99
69_H219_F1.3110.99
109_T169_I1.3040.98
269_D272_L1.2980.98
62_L79_V1.2970.98
44_R74_E1.2920.98
64_F100_L1.2910.98
47_E50_K1.2860.98
72_H75_T1.2850.98
124_K188_G1.2790.98
132_L153_C1.2790.98
333_G369_I1.2780.98
236_A240_H1.2760.98
372_E375_A1.2740.98
302_I344_A1.2720.98
297_A301_M1.2700.98
74_E78_N1.2690.98
407_A515_V1.2690.98
43_S48_T1.2660.98
496_V517_P1.2590.98
427_H454_Y1.2480.98
52_M363_V1.2460.98
82_A86_F1.2440.98
164_V171_L1.2430.98
218_K249_K1.2420.98
165_D168_L1.2390.98
112_I128_L1.2290.98
48_T52_M1.2260.97
296_L341_L1.2240.97
74_E77_K1.2210.97
150_K153_C1.2180.97
103_K106_E1.2160.97
68_T71_Y1.2140.97
43_S52_M1.2090.97
318_M336_V1.2060.97
199_L202_A1.2040.97
291_A333_G1.2020.97
131_T144_I1.2000.97
483_N487_A1.1990.97
33_T340_V1.1850.97
62_L225_V1.1840.97
304_R308_A1.1760.97
81_T85_S1.1740.96
46_V85_S1.1720.96
240_H244_K1.1720.96
320_E323_I1.1720.96
76_I219_F1.1710.96
120_V142_E1.1620.96
418_V429_V1.1590.96
39_I75_T1.1470.96
149_Y155_V1.1460.96
99_A229_F1.1450.96
145_L191_L1.1400.96
199_L204_V1.1400.96
112_I191_L1.1380.96
234_R263_E1.1340.95
493_K519_P1.1310.95
235_K238_D1.1260.95
133_D144_I1.1220.95
120_V191_L1.1210.95
226_D449_R1.1190.95
398_E431_R1.1180.95
320_E351_G1.1180.95
131_T180_F1.1150.95
319_L362_A1.1150.95
76_I225_V1.1130.95
399_A407_A1.1090.95
326_P358_Y1.1020.94
36_I346_C1.1020.94
486_K493_K1.1020.94
185_V188_G1.0970.94
415_A439_I1.0930.94
246_L253_I1.0850.94
171_L185_V1.0850.94
46_V50_K1.0820.94
430_A454_Y1.0770.94
225_V253_I1.0750.93
30_A371_R1.0730.93
123_K188_G1.0730.93
221_V246_L1.0710.93
110_G146_W1.0700.93
78_N82_A1.0680.93
43_S353_T1.0650.93
39_I43_S1.0630.93
44_R78_N1.0620.93
53_I94_R1.0600.93
62_L98_V1.0550.93
50_K86_F1.0540.93
227_M256_I1.0470.92
39_I79_V1.0450.92
151_N155_V1.0430.92
125_G184_E1.0420.92
84_E445_P1.0410.92
272_L301_M1.0410.92
59_V346_C1.0360.92
268_F304_R1.0360.92
81_T84_E1.0360.92
77_K81_T1.0350.92
358_Y362_A1.0340.92
130_I183_T1.0320.92
269_D308_A1.0310.92
33_T370_A1.0240.91
51_E360_L1.0200.91
360_L364_R1.0160.91
109_T145_L1.0130.91
106_E261_N1.0110.90
275_S278_I1.0100.90
198_N288_E1.0100.90
440_A457_I1.0060.90
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  
3gr4A411000.123Contact Map
1a3wA20.94611000.143Contact Map
4kctB20.95761000.163Contact Map
3t05A40.90561000.17Contact Map
2e28A10.90751000.172Contact Map
3khdA40.94991000.173Contact Map
3gg8A40.94411000.173Contact Map
1e0tA40.85741000.18Contact Map
4drsA20.91521000.204Contact Map
3qtgA20.85931000.219Contact 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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