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T0801

ID: 1401726994 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 376 (362)
Sequences: 29026 (18483.4)
Seq/Len: 80.182
Nf(neff/√len): 971.5

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: 80.182).

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
263_N365_R4.5491.00
267_A368_I3.9281.00
313_A373_N3.9051.00
113_E144_K3.8371.00
139_M143_K3.7381.00
263_N361_P3.4301.00
18_Q22_G3.4271.00
134_E137_T3.2501.00
39_W248_E3.0301.00
139_M149_V2.7521.00
360_S363_N2.6351.00
259_A361_P2.5721.00
15_D19_S2.5701.00
267_A365_R2.5241.00
109_E137_T2.5241.00
109_E141_L2.4231.00
262_Q266_D2.4231.00
256_Q260_L2.4131.00
73_E120_T2.3991.00
309_F312_E2.3491.00
137_T140_A2.3291.00
366_T370_T2.3131.00
111_L114_A2.2791.00
140_A144_K2.2561.00
11_G15_D2.2431.00
73_E117_T2.2131.00
111_L115_A2.2051.00
263_N267_A2.1861.00
38_Q42_Q2.1731.00
39_W244_W2.1371.00
123_I142_A2.0911.00
267_A270_P2.0831.00
73_E96_V2.0831.00
142_A149_V2.0661.00
315_I370_T2.0121.00
73_E119_K2.0041.00
113_E145_H1.9741.00
252_R255_Q1.9641.00
48_K197_K1.9561.00
142_A147_L1.9531.00
14_L18_Q1.9041.00
309_F313_A1.8981.00
265_Y293_F1.8761.00
113_E141_L1.8671.00
112_I138_I1.8651.00
47_A197_K1.8531.00
136_D140_A1.8451.00
125_P138_I1.8341.00
245_A248_E1.7851.00
309_F374_Y1.7771.00
313_A370_T1.7771.00
73_E94_K1.7761.00
124_V150_V1.7741.00
78_S99_D1.7701.00
108_D111_L1.7061.00
255_Q259_A1.6991.00
353_L367_V1.6981.00
12_T245_A1.6981.00
267_A369_A1.6961.00
113_E117_T1.6761.00
256_Q259_A1.6751.00
99_D111_L1.6741.00
310_L317_A1.6701.00
14_L22_G1.6661.00
308_N312_E1.6661.00
59_L83_S1.6271.00
98_V115_A1.6251.00
40_L191_A1.6181.00
197_K201_E1.6081.00
72_D121_R1.5931.00
361_P365_R1.5821.00
52_T58_S1.5811.00
141_L145_H1.5801.00
122_V150_V1.5801.00
263_N364_Q1.5791.00
194_I200_I1.5731.00
267_A372_L1.5721.00
113_E137_T1.5711.00
117_T120_T1.5711.00
75_I120_T1.5671.00
110_T113_E1.5591.00
19_S23_S1.5511.00
31_G35_R1.5511.00
12_T249_A1.5111.00
17_M21_M1.5101.00
177_F191_A1.5021.00
49_V193_L1.4901.00
315_I367_V1.4451.00
53_P57_A1.4261.00
123_I147_L1.4241.00
296_K349_R1.4091.00
15_D18_Q1.3900.99
366_T369_A1.3780.99
143_K171_H1.3730.99
72_D119_K1.3620.99
59_L150_V1.3400.99
116_I141_L1.3350.99
365_R369_A1.3340.99
110_T114_A1.3240.99
306_L374_Y1.3230.99
306_L371_L1.3210.99
37_Q51_L1.3180.99
264_Y355_L1.3100.99
44_F193_L1.3070.99
136_D168_T1.3040.99
260_L364_Q1.2990.99
368_I372_L1.2960.99
278_E296_K1.2850.99
265_Y269_A1.2780.99
270_P372_L1.2770.99
35_R39_W1.2750.99
271_L372_L1.2650.99
278_E298_R1.2640.99
363_N366_T1.2640.99
66_L148_F1.2610.99
52_T190_G1.2550.99
302_D305_A1.2540.99
369_A373_N1.2520.99
36_C243_L1.2510.99
101_R104_T1.2480.99
75_I115_A1.2470.99
96_V115_A1.2330.98
138_I149_V1.2190.98
35_R244_W1.2110.98
305_A309_F1.2060.98
39_W42_Q1.1960.98
164_R168_T1.1930.98
19_S32_F1.1920.98
123_I138_I1.1870.98
179_E184_T1.1770.98
136_D162_K1.1730.98
43_R251_D1.1680.97
310_L370_T1.1640.97
295_I353_L1.1640.97
17_M242_Y1.1610.97
170_G173_G1.1600.97
153_A173_G1.1470.97
116_I120_T1.1450.97
362_V365_R1.1400.97
258_L262_Q1.1350.97
260_L263_N1.1220.97
14_L21_M1.1200.96
165_A168_T1.1160.96
34_R38_Q1.1140.96
294_Y350_L1.1130.96
125_P135_M1.1090.96
110_T137_T1.1070.96
245_A249_A1.1050.96
310_L315_I1.1000.96
11_G22_G1.0940.96
116_I147_L1.0870.96
41_E49_V1.0850.96
68_I93_A1.0850.96
175_F191_A1.0840.96
59_L176_S1.0830.96
62_A172_I1.0800.95
266_D269_A1.0800.95
255_Q258_L1.0790.95
55_C174_C1.0790.95
256_Q361_P1.0780.95
77_P134_E1.0760.95
260_L361_P1.0750.95
117_T145_H1.0730.95
45_G165_A1.0670.95
101_R108_D1.0570.95
264_Y353_L1.0520.95
266_D270_P1.0500.94
308_N311_K1.0440.94
236_S239_Q1.0400.94
16_Y245_A1.0390.94
345_K349_R1.0390.94
183_Y189_G1.0380.94
259_A263_N1.0370.94
32_F244_W1.0350.94
280_P296_K1.0300.94
13_E245_A1.0190.93
129_A340_D1.0180.93
32_F35_R1.0130.93
69_Q72_D1.0020.92
313_A374_Y1.0020.92
367_V371_L1.0010.92
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: (24May14)
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  
2c81A10.97871000.285Contact Map
3frkA20.94951000.288Contact Map
3dr4A40.96811000.294Contact Map
1mdoA10.96011000.299Contact Map
4lc3A20.97341000.3Contact Map
3b8xA20.97071000.307Contact Map
1o69A20.93091000.308Contact Map
1b9hA10.97071000.308Contact Map
2fnuA20.96811000.319Contact Map
2po3A20.95481000.319Contact 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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