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kcnk18

ID: 1506547249 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 50% gaps before running GREMLIN.
Length: 384 (279)
Sequences: 2654 (1412.2)
Seq/Len: 9.513
Nf(neff/√len): 84.5

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: 9.513).

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 > 50% 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
126_T129_G2.6031.00
109_F133_C2.5191.00
309_D312_N2.3661.00
112_T117_V2.2201.00
305_E308_L2.0721.00
130_K312_N2.0401.00
297_A343_Y1.9921.00
320_T344_I1.9821.00
128_L132_L1.8821.00
33_Y37_G1.7621.00
142_P145_F1.7481.00
315_Y328_D1.7401.00
113_V326_F1.7111.00
325_G328_D1.7041.00
312_N329_T1.5541.00
293_Y297_A1.5531.00
337_F341_S1.5441.00
82_D89_K1.5181.00
34_A114_F1.5011.00
150_D154_I1.4731.00
37_G41_F1.4671.00
109_F116_T1.4461.00
83_L87_L1.4461.00
23_G26_F1.4391.00
104_L114_F1.4331.00
110_C114_F1.4281.00
38_A107_L1.4250.99
142_P152_G1.4190.99
147_V154_I1.4190.99
127_R131_Y1.4180.99
295_S310_F1.3980.99
75_V78_D1.3730.99
352_F356_K1.3670.99
31_V35_L1.3630.99
301_L308_L1.3530.99
147_V150_D1.3440.99
87_L91_K1.3360.99
66_C69_L1.3190.99
337_F343_Y1.3090.99
36_V43_A1.3080.99
352_F359_Q1.2940.99
356_K359_Q1.2930.99
41_F45_E1.2930.99
44_I132_L1.2830.99
76_V80_K1.2700.99
338_L344_I1.2690.99
352_F355_F1.2630.98
315_Y319_V1.2620.98
82_D86_H1.2600.98
108_F121_Y1.2600.98
40_V43_A1.2530.98
22_P25_C1.2520.98
100_H105_S1.2520.98
17_L20_L1.2460.98
128_L131_Y1.2370.98
108_F112_T1.2320.98
17_L22_P1.2280.98
113_V137_A1.2250.98
318_F324_I1.2190.98
318_F322_T1.2180.98
301_L305_E1.2130.98
38_A42_S1.2070.98
112_T121_Y1.2050.98
25_C29_F1.2050.98
108_F111_C1.1990.98
323_T328_D1.1940.98
320_T323_T1.1890.98
315_Y320_T1.1880.98
19_K22_P1.1880.98
146_L156_A1.1880.98
112_T116_T1.1810.97
85_G89_K1.1650.97
23_G150_D1.1620.97
136_Y140_G1.1600.97
343_Y351_V1.1580.97
336_F340_F1.1540.97
130_K149_T1.1510.97
48_Q52_A1.1420.97
58_F62_L1.1410.97
60_K63_E1.1410.97
112_T115_S1.1390.97
103_F107_L1.1340.96
45_E101_W1.1320.96
137_A142_P1.1310.96
101_W109_F1.1300.96
32_T35_L1.1300.96
316_F324_I1.1290.96
52_A55_D1.1260.96
101_W106_S1.1240.96
137_A141_I1.1240.96
36_V59_E1.1210.96
109_F112_T1.1120.96
319_V328_D1.1110.96
109_F115_S1.1090.96
24_L27_L1.1080.96
298_A310_F1.1020.96
34_A38_A1.0970.96
16_A20_L1.0910.95
339_F349_E1.0900.95
119_Y320_T1.0900.95
129_G137_A1.0900.95
87_L90_V1.0890.95
154_I163_Y1.0860.95
308_L329_T1.0840.95
58_F61_F1.0840.95
109_F113_V1.0800.95
133_C319_V1.0800.95
59_E81_Q1.0790.95
324_I327_G1.0790.95
308_L313_A1.0760.95
159_L163_Y1.0740.95
75_V79_R1.0730.95
320_T325_G1.0720.95
323_T327_G1.0650.94
343_Y350_I1.0590.94
83_L89_K1.0570.94
35_L39_V1.0540.94
81_Q88_Q1.0520.94
71_C78_D1.0510.94
320_T328_D1.0510.94
310_F314_F1.0480.94
16_A19_K1.0460.94
51_V54_D1.0460.94
120_G124_P1.0440.94
50_L54_D1.0310.93
110_C113_V1.0300.93
89_K92_P1.0290.93
337_F340_F1.0280.93
322_T348_M1.0250.93
45_E49_V1.0240.93
269_L272_V1.0240.93
146_L150_D1.0220.93
348_M353_I1.0180.93
86_H90_V1.0170.93
106_S116_T1.0150.92
145_F152_G1.0130.92
47_G51_V1.0110.92
81_Q84_Q1.0100.92
55_D59_E1.0080.92
285_I289_I1.0080.92
72_S77_E1.0060.92
121_Y133_C1.0040.92
357_L361_R1.0040.92
101_W113_V1.0010.92
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: (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  
4twkA20.66151000.483Contact Map
4bw5A40.63281000.488Contact Map
4wfeA20.63021000.492Contact Map
3ukmA40.61981000.497Contact Map
3effK40.281299.60.803Contact Map
3ldcA10.213599.60.804Contact Map
3pjsK40.283999.60.805Contact Map
2k1eA40.252699.50.813Contact Map
1lnqA80.229299.50.813Contact Map
2a9hA40.252699.50.815Contact 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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