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Pil T - WP_0022184871 MC58

ID: 1513402955 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 347 (343)
Sequences: 8841 (5258.4)
Seq/Len: 25.776
Nf(neff/√len): 283.9

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: 25.776).

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
118_I262_A3.3691.00
156_L192_A3.1371.00
121_S261_T2.9921.00
93_A154_H2.8921.00
158_I188_A2.8761.00
287_N312_S2.8571.00
116_Q146_Y2.8321.00
272_H331_A2.7851.00
127_L226_G2.7121.00
129_T228_L2.6921.00
232_G235_K2.5911.00
293_L305_V2.4891.00
323_S327_Q2.4811.00
271_T278_V2.4591.00
51_V94_A2.3961.00
89_G162_I2.2831.00
149_E169_K2.2501.00
292_N296_E2.2171.00
105_S108_E2.1911.00
107_E116_Q2.1091.00
320_S324_L2.0911.00
232_G303_N2.0541.00
84_N195_E2.0341.00
318_D339_A2.0321.00
153_A199_V2.0141.00
119_A143_M2.0071.00
264_I283_I1.9851.00
33_D270_K1.9421.00
19_H196_D1.9401.00
81_F96_F1.9371.00
278_V329_L1.9351.00
286_A291_R1.9291.00
77_N100_P1.9091.00
205_M214_A1.8661.00
128_V139_T1.8501.00
315_Q323_S1.8121.00
93_A174_N1.8021.00
290_V302_I1.8021.00
8_A12_K1.7971.00
10_G15_A1.7921.00
321_L335_A1.7851.00
15_A30_V1.7311.00
115_F143_M1.7071.00
316_T319_Q1.7001.00
140_L201_L1.6971.00
85_A94_A1.6971.00
6_L18_L1.6951.00
117_K285_I1.6941.00
139_T266_Q1.6911.00
298_K301_Q1.6901.00
205_M226_G1.6831.00
293_L298_K1.6761.00
184_S187_N1.6691.00
322_Q326_R1.6661.00
320_S323_S1.6551.00
99_I164_F1.6451.00
25_S36_R1.6291.00
86_F176_R1.6251.00
286_A294_I1.6211.00
140_L225_F1.6151.00
33_D152_P1.6111.00
205_M211_I1.5981.00
63_Y92_P1.5961.00
81_F98_T1.5871.00
120_E146_Y1.5871.00
9_F13_N1.5751.00
334_V337_R1.5741.00
271_T329_L1.5711.00
200_I217_A1.5651.00
132_T197_P1.5531.00
189_L213_L1.5471.00
29_R196_D1.5321.00
190_R207_D1.5191.00
289_A312_S1.5131.00
237_V260_L1.5071.00
307_Q319_Q1.5021.00
284_L314_M1.5001.00
145_N149_E1.4871.00
102_T108_E1.4811.00
14_K275_N1.4781.00
280_S324_L1.4771.00
10_G18_L1.4651.00
270_K334_V1.4621.00
30_V35_R1.4571.00
325_V335_A1.4341.00
24_I47_V1.4221.00
158_I192_A1.4201.00
192_A200_I1.4191.00
211_I243_V1.4171.00
28_I37_I1.4131.00
153_A171_S1.4131.00
208_P212_G1.4081.00
126_V223_L1.4020.99
287_N305_V1.3980.99
301_Q304_S1.3980.99
83_V96_F1.3830.99
106_L142_A1.3720.99
3_I50_M1.3630.99
148_N155_I1.3590.99
149_E152_P1.3460.99
305_V309_G1.3450.99
278_V324_L1.3420.99
129_T230_T1.3420.99
126_V262_A1.3410.99
212_G216_T1.3120.99
48_G52_T1.2970.99
88_I174_N1.2960.99
118_I126_V1.2910.99
305_V312_S1.2900.99
330_I334_V1.2870.99
326_R329_L1.2690.99
13_N35_R1.2690.99
325_V332_P1.2670.99
147_I199_V1.2490.99
67_L87_N1.2470.99
36_R39_L1.2430.98
145_N169_K1.2410.98
19_H29_R1.2350.98
330_I335_A1.2330.98
52_T60_R1.2210.98
56_N59_Q1.2160.98
43_S46_E1.2150.98
146_Y150_T1.2060.98
93_A156_L1.1980.98
144_I201_L1.1930.98
62_I66_N1.1900.98
324_L329_L1.1850.98
107_E146_Y1.1730.98
61_K65_Q1.1670.97
234_A284_L1.1600.97
27_M36_R1.1580.97
125_M224_V1.1560.97
211_I240_I1.1540.97
271_T276_G1.1470.97
132_T222_H1.1440.97
63_Y182_T1.1400.97
158_I178_L1.1340.97
267_N317_M1.1260.97
322_Q325_V1.1220.97
104_L108_E1.1190.96
31_H276_G1.1180.96
68_E182_T1.1080.96
315_Q320_S1.1070.96
11_A79_A1.1060.96
176_R192_A1.1060.96
281_H315_Q1.1020.96
123_R261_T1.0860.96
188_A192_A1.0850.96
128_V140_L1.0850.96
14_K31_H1.0850.96
216_T242_D1.0800.95
147_I225_F1.0770.95
129_T265_S1.0600.95
54_V83_V1.0500.94
36_R151_Q1.0470.94
260_L263_V1.0460.94
204_E229_H1.0440.94
256_L260_L1.0390.94
289_A305_V1.0340.94
318_D321_L1.0340.94
236_T263_V1.0300.94
63_Y181_H1.0290.94
106_L116_Q1.0230.93
10_G28_I1.0170.93
109_L142_A1.0160.93
207_D210_T1.0160.93
186_A209_E1.0150.93
154_H174_N1.0130.93
111_A281_H1.0130.93
261_T291_R1.0120.93
305_V311_A1.0100.93
129_T236_T1.0080.93
194_R206_R1.0060.93
15_A28_I1.0050.93
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  
2ewvA10.97981000.189Contact Map
3jvvA30.97121000.207Contact Map
4ksrA301000.285Contact Map
4phtA30.91351000.298Contact Map
1p9rA10.91071000.337Contact Map
2eyuA20.70031000.427Contact Map
2oap120.95681000.469Contact Map
4ihqA30.95971000.493Contact Map
2gzaA30.81561000.537Contact Map
4bloA120.680199.90.704Contact 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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