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ECAP

ID: 1505351208 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 485 (451)
Sequences: 900 (466.3)
Seq/Len: 1.996
Nf(neff/√len): 22.0

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: 1.996).

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
275_D278_S4.4141.00
136_T141_S3.5871.00
185_A360_A3.1791.00
240_L291_L2.7331.00
188_Q205_Y2.4781.00
171_M475_F2.4421.00
178_A349_N2.3701.00
381_L385_V2.3531.00
301_P332_V2.3481.00
124_A140_A2.3331.00
276_A280_N2.3271.00
166_P174_A2.2721.00
276_A337_Q2.2711.00
142_A194_A2.2291.00
361_S364_K2.2161.00
167_T170_E2.1590.99
282_V291_L2.1430.99
168_I478_M2.1300.99
187_L239_T2.1200.99
173_K237_D2.1100.99
188_Q228_T2.1080.99
260_T263_E2.0420.99
84_L400_V2.0140.99
169_L179_T2.0030.99
85_I145_W1.9740.99
386_Q390_E1.9730.99
177_L482_L1.9510.99
340_D387_R1.9150.98
391_F395_E1.8830.98
259_K264_Q1.8640.98
182_V342_A1.8330.98
97_A378_T1.8170.98
86_G362_I1.8160.98
151_T155_A1.8090.98
145_W356_Q1.8030.98
156_L194_A1.7710.97
244_A272_L1.7610.97
303_R380_D1.7540.97
116_L466_V1.7200.96
407_A451_S1.7000.96
82_I388_A1.6920.96
380_D383_E1.6660.96
169_L354_F1.6470.95
240_L293_G1.6110.94
300_M338_M1.6020.94
359_G381_L1.5960.94
155_A158_V1.5950.94
83_L401_I1.5900.94
465_V474_L1.5800.94
90_G404_A1.5720.93
341_K344_E1.5690.93
197_A227_I1.5680.93
191_T356_Q1.5630.93
182_V240_L1.5590.93
344_E391_F1.5560.93
110_G386_Q1.5560.93
118_G455_I1.5350.92
229_E233_N1.5180.92
83_L354_F1.5020.91
401_I478_M1.5000.91
136_T153_N1.4950.91
120_Y455_I1.4950.91
102_E109_K1.4940.91
177_L351_K1.4680.90
89_M362_I1.4610.90
170_E198_H1.4560.89
135_V450_G1.4560.89
157_G167_T1.4530.89
302_V365_Q1.4440.89
368_A445_S1.4410.89
392_A395_E1.4410.89
186_E205_Y1.4400.89
199_V217_N1.4380.89
341_K345_L1.4300.88
140_A153_N1.4250.88
116_L462_A1.4130.87
122_H453_L1.3990.87
172_A484_L1.3930.86
84_L388_A1.3880.86
237_D290_P1.3850.86
339_T357_V1.3850.86
336_A387_R1.3800.86
275_D331_S1.3770.85
469_T477_T1.3750.85
296_A332_V1.3740.85
142_A146_S1.3730.85
147_T157_G1.3710.85
336_A383_E1.3670.85
111_I382_D1.3620.85
90_G451_S1.3570.84
152_Y155_A1.3550.84
455_I469_T1.3460.84
240_L282_V1.3440.84
172_A179_T1.3440.84
296_A300_M1.3340.83
209_A249_E1.3310.83
96_A436_M1.3310.83
366_D410_S1.3270.82
187_L294_L1.3260.82
388_A392_A1.3190.82
263_E267_A1.3180.82
146_S195_L1.3170.82
156_L197_A1.3140.82
94_I456_A1.3000.81
141_S471_Q1.2950.80
81_I482_L1.2840.80
343_I388_A1.2840.80
85_I191_T1.2720.79
181_N195_L1.2520.77
101_A379_V1.2520.77
145_W191_T1.2400.76
196_V231_L1.2380.76
336_A380_D1.2350.76
156_L193_A1.2340.76
90_G410_S1.2220.75
303_R334_T1.2170.74
359_G380_D1.2170.74
188_Q246_T1.2150.74
120_Y474_L1.2130.74
95_T412_V1.2130.74
240_L342_A1.2130.74
173_K179_T1.2080.73
125_L160_I1.2080.73
205_Y246_T1.2020.73
206_G246_T1.2020.73
229_E259_K1.1960.72
178_A348_K1.1960.72
357_V384_A1.1930.72
184_T338_M1.1890.72
124_A153_N1.1860.71
461_H480_A1.1860.71
456_A468_L1.1860.71
136_T140_A1.1840.71
280_N341_K1.1830.71
197_A478_M1.1820.71
168_I420_P1.1820.71
262_R272_L1.1810.71
157_G165_H1.1790.71
125_L152_Y1.1740.70
186_E189_D1.1680.70
302_V361_S1.1670.70
101_A382_D1.1610.69
265_A426_L1.1600.69
78_A481_A1.1550.69
95_T112_D1.1470.68
412_V449_T1.1390.67
142_A157_G1.1350.67
111_I381_L1.1350.67
186_E298_G1.1340.67
90_G484_L1.1310.66
181_N236_A1.1310.66
141_S153_N1.1280.66
85_I142_A1.1280.66
84_L381_L1.1240.66
273_V291_L1.1210.65
124_A136_T1.1210.65
180_G355_L1.1160.65
384_A388_A1.1140.65
189_D364_K1.1110.64
296_A301_P1.0960.63
89_M404_A1.0950.63
120_Y469_T1.0940.62
274_N278_S1.0920.62
85_I401_I1.0890.62
400_V458_Y1.0890.62
343_I391_F1.0860.62
340_D344_E1.0790.61
475_F479_K1.0770.61
385_V400_V1.0770.61
91_D454_R1.0770.61
118_G466_V1.0730.60
171_M484_L1.0720.60
186_E299_N1.0690.60
157_G194_A1.0640.59
28_L31_P1.0630.59
55_P165_H1.0620.59
168_I195_L1.0600.59
232_L261_L1.0600.59
92_S451_S1.0570.59
305_L373_G1.0560.58
118_G469_T1.0530.58
121_T468_L1.0490.58
30_T34_K1.0460.57
146_S356_Q1.0460.57
121_T470_D1.0450.57
207_P214_C1.0430.57
18_S22_L1.0420.57
156_L377_E1.0420.57
112_D188_Q1.0410.57
305_L377_E1.0380.56
136_T471_Q1.0350.56
197_A385_V1.0350.56
205_Y299_N1.0290.55
279_L295_F1.0260.55
359_G384_A1.0260.55
112_D382_D1.0230.55
80_N460_P1.0220.55
240_L295_F1.0220.55
90_G168_I1.0190.54
279_L293_G1.0170.54
30_T33_T1.0160.54
147_T165_H1.0090.53
86_G89_M1.0030.53
112_D205_Y1.0010.52
188_Q299_N1.0000.52
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  
3e2dA20.75051000.327Contact Map
1k7hA20.81861000.384Contact Map
2x98A20.74431000.468Contact Map
1zedA10.82891000.469Contact Map
3tg0A40.91341000.478Contact Map
3wbhA20.74851000.519Contact Map
3a52A20.71341000.529Contact Map
2w5vA20.70311000.719Contact Map
2mlyB10.30931000.776Contact Map
3q3qA10.721699.90.863Contact 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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