GREMLIN Database
YKYA - Uncharacterized lipoprotein YkyA
UniProt: P21884 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 223 (207)
Sequences: 189 (162)
Seq/√Len: 11.3

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
86_N168_K4.7321.00
92_V157_L3.7000.99
202_T206_N3.2280.97
159_L162_K2.6630.90
55_T160_N2.5040.87
60_E95_R2.4710.87
40_E213_Y2.4350.86
142_R202_T2.3950.85
145_S194_Y2.3870.85
185_N199_N2.3720.84
58_E62_K2.3660.84
51_E169_D2.3060.82
63_E160_N2.3000.82
185_N206_N2.2670.81
199_N202_T2.0550.74
96_E161_K2.0510.74
142_R198_F1.9800.71
198_F202_T1.9250.69
129_K133_D1.9160.69
103_N107_K1.8760.67
49_F105_S1.8460.66
185_N202_T1.8340.65
75_M78_Y1.7910.63
146_Y205_Y1.7880.63
73_L139_M1.7730.62
81_I175_D1.7310.61
59_L110_E1.7200.60
67_Y185_N1.6980.59
62_K129_K1.6910.59
97_E207_K1.6850.58
53_Q63_E1.6750.58
96_E193_K1.6660.57
146_Y181_I1.6640.57
142_R206_N1.6630.57
42_A106_M1.6570.57
61_A125_E1.6490.57
76_D146_Y1.6480.57
110_E114_E1.6180.55
111_T133_D1.6060.55
97_E130_E1.5890.54
39_L113_F1.5860.54
49_F53_Q1.5380.51
199_N206_N1.5220.51
63_E164_Y1.5160.50
142_R199_N1.5150.50
82_V168_K1.5140.50
156_A188_Y1.5070.50
136_A140_E1.4680.48
180_Q183_K1.4610.48
111_T151_K1.4200.46
198_F206_N1.4180.45
11_I79_K1.4070.45
38_S112_E1.3970.44
207_K211_D1.3910.44
15_A203_E1.3870.44
53_Q139_M1.3550.42
130_E191_I1.3520.42
53_Q177_L1.3490.42
64_N76_D1.3140.40
43_A205_Y1.3120.40
25_G124_K1.3070.40
142_R185_N1.3060.40
32_V35_L1.3040.40
49_F139_M1.3020.40
39_L105_S1.2990.40
113_F139_M1.2970.40
68_D186_A1.2730.39
59_L195_S1.2550.38
77_D216_A1.2460.37
12_K155_K1.2430.37
130_E214_D1.2370.37
67_Y146_Y1.2280.37
39_L177_L1.2160.36
112_E115_E1.2040.35
40_E212_L1.2010.35
32_V120_A1.2000.35
56_L61_A1.2000.35
18_A179_Q1.1900.35
67_Y71_M1.1890.35
70_V120_A1.1680.34
95_R163_L1.1560.33
91_N123_I1.1460.33
53_Q105_S1.1450.33
63_E177_L1.1190.32
93_S127_D1.1180.32
212_L216_A1.1150.32
58_E100_K1.1020.31
67_Y168_K1.0940.31
110_E136_A1.0900.31
101_L146_Y1.0790.30
41_K79_K1.0770.30
176_D190_K1.0720.30
41_K181_I1.0690.30
44_E70_V1.0620.29
164_Y199_N1.0570.29
149_M188_Y1.0460.29
24_T115_E1.0440.29
106_M181_I1.0430.29
47_K154_K1.0320.28
67_Y132_A1.0230.28
15_A186_A1.0210.28
209_R213_Y1.0170.28
81_I177_L1.0160.28
99_L109_S1.0160.28
40_E205_Y1.0150.28
67_Y206_N1.0130.27
70_V82_V1.0050.27
40_E43_A1.0040.27
67_Y199_N1.0020.27
56_L168_K0.9990.27
75_M178_D0.9790.26
155_K197_E0.9780.26
69_S189_E0.9730.26
53_Q73_L0.9650.26
109_S201_Q0.9620.26
22_I179_Q0.9570.25
51_E151_K0.9550.25
51_E115_E0.9470.25
85_S187_S0.9370.25
166_Q207_K0.9340.25
213_Y216_A0.9300.24
63_E73_L0.9280.24
91_N184_V0.9230.24
49_F160_N0.9220.24
185_N198_F0.9190.24
182_D194_Y0.9150.24
143_Y171_D0.9060.24
13_I155_K0.9040.23
100_K204_K0.8990.23
81_I181_I0.8960.23
21_L137_N0.8960.23
88_A160_N0.8940.23
64_N86_N0.8890.23
99_L149_M0.8840.23
109_S137_N0.8670.22
24_T147_G0.8640.22
123_I164_Y0.8630.22
94_K196_G0.8550.22
24_T93_S0.8510.22
20_A25_G0.8500.22
19_M23_L0.8450.21
64_N82_V0.8410.21
205_Y213_Y0.8400.21
63_E105_S0.8390.21
69_S167_L0.8360.21
70_V92_V0.8360.21
132_A164_Y0.8340.21
69_S147_G0.8280.21
118_T141_K0.8250.21
86_N94_K0.8250.21
71_M124_K0.8250.21
32_V200_E0.8240.21
112_E116_A0.8230.21
53_Q146_Y0.8220.21
42_A59_L0.8160.21
73_L177_L0.8150.20
21_L90_E0.8100.20
126_K208_A0.8050.20
117_K120_A0.8050.20
25_G214_D0.8030.20
193_K203_E0.7980.20
119_S167_L0.7930.20
144_T154_K0.7910.20
62_K104_D0.7900.20
77_D80_K0.7880.20
63_E113_F0.7870.20
117_K140_E0.7870.20
94_K97_E0.7830.19
100_K104_D0.7770.19
27_M192_L0.7760.19
63_E139_M0.7720.19
67_Y205_Y0.7720.19
63_E146_Y0.7710.19
51_E133_D0.7710.19
177_L199_N0.7680.19
115_E141_K0.7660.19
68_D104_D0.7640.19
21_L24_T0.7630.19
177_L180_Q0.7600.19
80_K118_T0.7600.19
41_K89_L0.7560.19
59_L143_Y0.7560.19
109_S113_F0.7540.19
121_E162_K0.7520.19
151_K184_V0.7490.18
58_E155_K0.7480.18
50_Q140_E0.7460.18
49_F177_L0.7440.18
49_F71_M0.7440.18
94_K144_T0.7420.18
68_D110_E0.7420.18
129_K191_I0.7410.18
54_N140_E0.7340.18
149_M195_S0.7300.18
111_T193_K0.7290.18
173_T176_D0.7260.18
205_Y212_L0.7250.18
116_A208_A0.7240.18
174_R178_D0.7230.18
16_F156_A0.7230.18
150_Y204_K0.7160.18
115_E121_E0.7140.17
49_F63_E0.7110.17
96_E174_R0.7060.17
156_A173_T0.7030.17
87_K194_Y0.7000.17
60_E163_L0.7000.17
23_L41_K0.7000.17
63_E88_A0.7000.17
22_I154_K0.6990.17
79_K101_L0.6990.17
122_H127_D0.6980.17
24_T98_H0.6980.17
38_S116_A0.6980.17
22_I108_K0.6950.17
143_Y213_Y0.6940.17
59_L70_V0.6930.17
122_H171_D0.6900.17
141_K144_T0.6790.16
85_S203_E0.6750.16
165_M168_K0.6730.16
44_E130_E0.6670.16
79_K157_L0.6660.16
35_L47_K0.6640.16
54_N170_K0.6630.16
60_E143_Y0.6600.16
107_K171_D0.6550.16
196_G200_E0.6550.16
63_E199_N0.6510.16
128_I212_L0.6440.16
57_K91_N0.6420.16
100_K103_N0.6410.15
46_E95_R0.6400.15
36_H209_R0.6390.15
39_L63_E0.6370.15
64_N195_S0.6360.15
142_R164_Y0.6350.15
32_V59_L0.6300.15
99_L145_S0.6260.15
84_L195_S0.6250.15
47_K54_N0.6250.15
63_E102_E0.6220.15
165_M183_K0.6210.15
39_L49_F0.6190.15
17_C24_T0.6170.15
114_E180_Q0.6170.15
71_M81_I0.6150.15
53_Q160_N0.6110.15
59_L161_K0.6110.15
38_S146_Y0.6100.15
39_L53_Q0.6100.15
125_E216_A0.6050.15
123_I197_E0.6050.15
76_D104_D0.6030.15
61_A203_E0.5980.14
75_M159_L0.5980.14
122_H133_D0.5960.14
45_S146_Y0.5930.14
122_H137_N0.5910.14
107_K126_K0.5900.14
11_I163_L0.5890.14
22_I81_I0.5890.14
78_Y172_L0.5880.14
171_D191_I0.5850.14
188_Y195_S0.5810.14
107_K147_G0.5770.14
48_P138_H0.5770.14
84_L188_Y0.5770.14
19_M158_E0.5760.14
147_G215_A0.5750.14
135_A156_A0.5730.14
74_N167_L0.5730.14
144_T155_K0.5720.14
182_D186_A0.5710.14
32_V128_I0.5710.14
72_K115_E0.5710.14
94_K147_G0.5680.14
78_Y170_K0.5650.14
16_F111_T0.5620.14
67_Y142_R0.5590.14
20_A190_K0.5580.13
20_A24_T0.5580.13
143_Y209_R0.5570.13
141_K158_E0.5560.13
171_D190_K0.5520.13
71_M169_D0.5470.13
85_S92_V0.5440.13
75_M85_S0.5420.13
211_D215_A0.5410.13
11_I51_E0.5400.13
146_Y177_L0.5390.13
88_A139_M0.5380.13
13_I58_E0.5360.13
86_N157_L0.5330.13
174_R208_A0.5320.13
182_D215_A0.5290.13
17_C183_K0.5270.13
74_N120_A0.5210.13
145_S197_E0.5190.13
136_A210_E0.5180.13
73_L160_N0.5140.13
43_A81_I0.5130.13
25_G216_A0.5110.12
103_N156_A0.5110.12
138_H208_A0.5090.12
43_A108_K0.5040.12
42_A93_S0.5020.12
21_L165_M0.5010.12
52_E55_T0.5000.12
18_A137_N0.5000.12
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
2ap3A 1 0.8565 100 0.268 Contact Map
4cgkA 3 0.6771 93.8 0.91 Contact Map
4q4gX 1 0 78.7 0.931 Contact Map
4r9fA 1 0.2915 63.6 0.938 Contact Map
3uorA 1 0.278 49.9 0.943 Contact Map
1i84S 2 0.4395 41.7 0.946 Contact Map
4r2fA 1 0.3991 40.6 0.946 Contact Map
3zbiC 1 0.1256 36.4 0.948 Contact Map
3cqxC 2 0.3274 36 0.948 Contact Map
4n01A 1 0.7444 27.2 0.951 Contact Map

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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