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4hst_b

ID: 1507042517 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 535 (525)
Sequences: 2163 (1404.4)
Seq/Len: 4.120
Nf(neff/√len): 61.3

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: 4.120).

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
188_S232_D6.8061.00
499_H502_D5.1181.00
84_A89_T4.8311.00
162_T165_Q4.7301.00
97_E122_R3.9911.00
89_T98_P3.5241.00
82_Q91_R3.4281.00
330_S333_A3.2791.00
270_R285_I3.1811.00
20_G67_C3.1681.00
43_D62_G3.0051.00
63_K185_V2.9671.00
8_P11_T2.8311.00
278_A281_D2.8091.00
17_I282_A2.7581.00
93_G214_G2.7251.00
12_A278_A2.7241.00
84_A96_F2.6261.00
519_W523_A2.6151.00
506_P511_A2.6121.00
99_V121_T2.5831.00
140_R145_A2.5591.00
101_W117_D2.5581.00
89_T96_F2.4931.00
287_A510_C2.4831.00
184_D188_S2.4621.00
103_R115_E2.4321.00
342_A405_V2.4151.00
318_M332_V2.4101.00
210_P216_H2.4091.00
377_A393_W2.4031.00
123_H217_E2.3291.00
35_H48_T2.2711.00
266_R288_D2.2101.00
342_A409_N2.2051.00
74_D77_D2.1831.00
99_V126_V2.1751.00
161_S165_Q2.1691.00
505_A509_D2.1581.00
3_N240_T2.1441.00
36_H43_D2.1291.00
414_S417_E2.1161.00
77_D200_R2.1051.00
170_T180_L2.0851.00
334_S418_E2.0331.00
290_L295_G2.0311.00
81_E121_T2.0311.00
103_R117_D2.0121.00
283_A484_R1.9971.00
70_S178_H1.9781.00
346_L405_V1.9771.00
190_G231_I1.9321.00
269_K295_G1.9281.00
65_A477_V1.9271.00
8_P16_P1.9041.00
44_M55_F1.9021.00
267_I452_V1.9011.00
102_S120_E1.8921.00
32_Y470_L1.8911.00
79_Y140_R1.8761.00
3_N181_V1.8591.00
26_F468_G1.8541.00
81_E123_H1.8391.00
298_R324_G1.8251.00
5_A238_I1.8231.00
92_F217_E1.8231.00
166_L182_A1.8211.00
8_P13_T1.8111.00
312_A404_S1.8021.00
328_A446_G1.8001.00
60_H483_S1.7941.00
18_L183_G1.7851.00
83_F136_A1.7840.99
100_A120_E1.7710.99
188_S231_I1.7490.99
6_V11_T1.7440.99
381_L393_W1.7310.99
323_D327_D1.6750.99
163_V182_A1.6740.99
6_V271_L1.6720.99
38_A43_D1.6710.99
315_L335_A1.6380.99
280_D284_A1.6290.99
157_M166_L1.6210.99
156_R172_G1.6210.99
92_F97_E1.6190.99
63_K161_S1.6160.99
403_L407_S1.5790.98
163_V166_L1.5640.98
230_V235_G1.5620.98
92_F95_D1.5580.98
91_R96_F1.5530.98
376_W395_W1.5420.98
192_L229_R1.5410.98
48_T55_F1.5260.98
289_T327_D1.5230.98
241_A267_I1.5230.98
63_K186_A1.5200.98
394_S397_Q1.5160.98
294_V336_Y1.4990.98
34_Q485_W1.4930.98
90_A99_V1.4930.98
349_D393_W1.4890.98
299_R324_G1.4850.98
101_W119_V1.4700.97
92_F122_R1.4690.97
36_H45_I1.4610.97
61_N64_V1.4600.97
167_Y229_R1.4520.97
239_V264_A1.4420.97
277_F281_D1.4320.97
99_V119_V1.4280.97
377_A381_L1.4210.97
289_T446_G1.4160.96
342_A406_A1.4120.96
283_A512_M1.4100.96
315_L407_S1.4080.96
295_G324_G1.4070.96
82_Q212_W1.4050.96
4_W267_I1.3960.96
35_H55_F1.3900.96
19_A286_H1.3880.96
279_V474_V1.3860.96
243_N264_A1.3820.96
34_Q503_Q1.3800.96
71_A177_D1.3750.96
163_V231_I1.3730.96
71_A193_V1.3710.95
140_R218_W1.3680.95
79_Y217_E1.3680.95
45_I515_M1.3650.95
291_S326_M1.3520.95
266_R270_R1.3360.95
285_I452_V1.3310.94
196_R221_W1.3310.94
64_V182_A1.3290.94
77_D218_W1.3280.94
492_S497_S1.3270.94
85_G89_T1.3270.94
189_I238_I1.3230.94
3_N67_C1.3230.94
24_R178_H1.3230.94
331_E334_S1.3140.94
518_S521_R1.3050.94
415_W419_H1.3040.94
68_V180_L1.3040.94
339_F403_L1.2960.93
13_T476_D1.2890.93
6_V282_A1.2800.93
84_A87_G1.2760.93
74_D200_R1.2760.93
181_V238_I1.2700.92
209_V216_H1.2530.92
519_W522_I1.2510.92
317_Q320_V1.2500.92
373_Q380_T1.2490.92
448_D451_T1.2460.92
316_R320_V1.2420.91
345_R348_T1.2350.91
323_D330_S1.2330.91
107_A113_D1.2270.91
453_L469_A1.2260.91
22_P58_F1.2200.90
123_H138_T1.2170.90
294_V298_R1.2150.90
4_W282_A1.2040.90
429_T439_N1.2030.90
378_V381_L1.2010.89
237_I272_V1.1950.89
486_V506_P1.1940.89
255_C258_C1.1890.89
24_R32_Y1.1850.89
173_W178_H1.1810.88
516_L525_E1.1800.88
37_L55_F1.1800.88
83_F99_V1.1800.88
16_P183_G1.1790.88
378_V393_W1.1740.88
289_T325_R1.1720.88
140_R217_E1.1670.88
1_S242_N1.1620.87
34_Q45_I1.1520.87
222_I252_D1.1500.86
506_P513_V1.1500.86
108_V114_R1.1490.86
197_V254_L1.1460.86
36_H522_I1.1400.86
280_D484_R1.1380.86
182_A188_S1.1340.85
23_H69_T1.1320.85
432_P435_A1.1290.85
237_I268_M1.1280.85
12_A276_A1.1240.85
298_R302_E1.1240.85
34_Q513_V1.1230.85
167_Y192_L1.1170.84
233_P236_G1.1140.84
477_V480_W1.1140.84
68_V154_L1.1130.84
1_S23_H1.1110.84
315_L403_L1.1090.84
119_V129_G1.1080.84
224_H229_R1.1000.83
2_N69_T1.0970.83
469_A472_R1.0940.83
266_R269_K1.0910.82
183_G189_I1.0870.82
90_A97_E1.0870.82
45_I60_H1.0800.81
349_D377_A1.0750.81
214_G217_E1.0730.81
21_D472_R1.0700.81
64_V166_L1.0700.81
85_G99_V1.0680.80
126_V136_A1.0680.80
76_H139_L1.0660.80
397_Q401_E1.0650.80
301_L339_F1.0640.80
490_G504_N1.0630.80
2_N23_H1.0620.80
105_R115_E1.0550.79
318_M331_E1.0440.78
168_D171_R1.0380.78
198_P218_W1.0320.77
122_R217_E1.0280.77
346_L402_A1.0240.76
189_I233_P1.0210.76
241_A452_V1.0190.76
13_T278_A1.0190.76
47_L471_S1.0190.76
4_W271_L1.0180.76
81_E138_T1.0170.76
163_V190_G1.0160.76
302_E320_V1.0060.75
180_L194_R1.0040.74
410_L413_R1.0040.74
10_R236_G1.0020.74
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  
4hstB10.96821000.053Contact Map
4e57A20.91031000.104Contact Map
1fm2B10.92711000.125Contact Map
4wksC10.92711000.155Contact Map
3k3wB10.93461000.172Contact Map
1cp9B10.93081000.177Contact Map
1gk9B10.93641000.181Contact Map
3gvzA20.450588.80.963Contact Map
4bjsA30.10286.80.982Contact Map
4durA20.11784.70.983Contact 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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