GREMLIN Database
YVCA - Putative lipoprotein YvcA
UniProt: O06965 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 241 (203)
Sequences: 129 (97)
Seq/√Len: 6.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
207_C214_C3.8970.95
48_P53_F3.1230.85
62_M78_K2.9590.82
79_L97_S2.8820.80
69_E85_L2.7560.77
61_Y75_L2.6870.75
53_F62_M2.6290.73
17_G21_M2.5740.71
153_Y186_F2.4910.69
156_S220_K2.4390.67
63_V74_L2.4330.67
59_R73_Y2.4300.67
79_L82_F2.3000.62
5_I10_S2.2750.61
116_T188_Y2.2650.61
57_K75_L2.1260.56
49_Q61_Y2.1020.55
12_L15_L2.0730.54
64_S73_Y2.0250.52
164_Y231_S2.0170.52
69_E76_E1.9740.50
5_I15_L1.8600.46
53_F117_N1.8580.46
50_V85_L1.8250.44
167_K222_K1.8090.44
53_F188_Y1.7820.43
163_I195_D1.7440.41
8_C12_L1.7060.40
206_G210_E1.6910.39
57_K61_Y1.6860.39
153_Y210_E1.6710.39
48_P59_R1.6530.38
48_P73_Y1.6310.37
186_F228_L1.6000.36
166_A232_I1.5430.34
7_I15_L1.5160.33
5_I8_C1.5050.33
48_P64_S1.5000.33
189_V232_I1.4940.33
12_L23_D1.4930.33
77_S234_F1.4590.31
11_L15_L1.4500.31
69_E227_K1.4490.31
76_E85_L1.4390.31
101_G226_E1.4300.31
16_T20_S1.4290.30
156_S178_K1.4090.30
216_L221_A1.4060.30
47_L60_E1.3860.29
225_V229_I1.3670.29
8_C13_L1.3640.28
78_K83_R1.3470.28
106_S199_V1.3410.28
144_S153_Y1.3380.28
53_F59_R1.3310.27
64_S90_G1.3160.27
81_G151_G1.3130.27
96_R121_D1.3070.27
68_E74_L1.3040.27
53_F73_Y1.3040.27
187_G229_I1.2960.26
73_Y188_Y1.2810.26
8_C23_D1.2740.26
63_V82_F1.2720.26
48_P66_K1.2710.26
7_I10_S1.2580.25
68_E225_V1.2500.25
13_L21_M1.2480.25
11_L22_N1.2290.24
159_K180_N1.2180.24
159_K223_N1.2050.24
45_K57_K1.2040.24
47_L65_T1.1990.24
126_Y191_S1.1980.24
162_D230_N1.1910.23
162_D192_T1.1860.23
140_L214_C1.1760.23
81_G191_S1.1740.23
140_L207_C1.1730.23
133_A142_I1.1700.23
140_L149_Y1.1650.23
59_R66_K1.1640.23
165_T226_E1.1620.23
15_L18_G1.1600.23
19_C64_S1.1570.22
58_T189_V1.1440.22
82_F97_S1.1440.22
56_E65_T1.1420.22
94_S205_L1.1400.22
50_V53_F1.1000.21
5_I12_L1.0930.21
87_P214_C1.0920.21
58_T61_Y1.0880.21
6_F12_L1.0800.21
50_V59_R1.0780.20
189_V210_E1.0780.20
77_S86_F1.0760.20
163_I199_V1.0620.20
86_F231_S1.0560.20
49_Q109_F1.0480.20
157_S220_K1.0350.19
51_P88_E1.0210.19
97_S234_F1.0180.19
72_Y110_N1.0170.19
47_L64_S1.0130.19
189_V225_V1.0120.19
225_V228_L1.0120.19
75_L79_L1.0050.19
176_D192_T1.0020.19
47_L59_R1.0020.19
57_K92_Y0.9990.19
131_S230_N0.9960.19
142_I199_V0.9950.19
84_M87_P0.9950.19
209_N221_A0.9910.18
16_T23_D0.9860.18
54_Q63_V0.9690.18
112_Y185_Y0.9680.18
74_L187_G0.9680.18
62_M144_S0.9630.18
13_L16_T0.9430.17
61_Y200_E0.9370.17
187_G225_V0.9360.17
195_D199_V0.9350.17
141_D187_G0.9330.17
109_F161_T0.9310.17
50_V79_L0.9260.17
91_K109_F0.9240.17
86_F228_L0.9190.17
5_I11_L0.9170.17
47_L50_V0.9130.17
189_V196_N0.9100.17
80_K211_N0.9060.17
197_L201_Y0.9050.17
149_Y166_A0.9020.16
10_S15_L0.9010.16
70_P79_L0.8980.16
59_R63_V0.8950.16
67_E190_K0.8890.16
144_S183_Y0.8880.16
82_F181_Y0.8870.16
15_L20_S0.8820.16
153_Y228_L0.8670.16
217_D220_K0.8660.16
135_E150_K0.8570.16
99_L185_Y0.8560.16
140_L164_Y0.8470.15
15_L22_N0.8470.15
11_L20_S0.8400.15
94_S124_V0.8400.15
10_S24_N0.8350.15
76_E83_R0.8340.15
7_I22_N0.8330.15
63_V83_R0.8310.15
88_E199_V0.8230.15
58_T75_L0.8190.15
189_V201_Y0.8190.15
6_F13_L0.8180.15
90_G191_S0.8130.15
11_L21_M0.8060.15
23_D61_Y0.8020.14
108_G211_N0.8020.14
56_E71_G0.7990.14
59_R64_S0.7960.14
14_A80_K0.7960.14
187_G201_Y0.7930.14
101_G153_Y0.7880.14
22_N73_Y0.7860.14
55_D58_T0.7850.14
83_R197_L0.7810.14
133_A153_Y0.7810.14
88_E106_S0.7750.14
7_I11_L0.7750.14
201_Y212_Q0.7730.14
200_E232_I0.7660.14
165_T199_V0.7590.14
57_K105_E0.7530.14
60_E78_K0.7510.14
6_F9_F0.7480.14
10_S19_C0.7440.13
104_K130_E0.7390.13
157_S211_N0.7370.13
54_Q82_F0.7330.13
107_I149_Y0.7270.13
157_S227_K0.7210.13
70_P189_V0.7210.13
109_F184_S0.7170.13
145_G200_E0.7150.13
131_S135_E0.7110.13
148_D185_Y0.7100.13
140_L231_S0.7100.13
90_G144_S0.7070.13
48_P71_G0.7070.13
14_A20_S0.7010.13
12_L16_T0.7000.13
72_Y169_K0.6990.13
82_F136_P0.6980.13
12_L68_E0.6960.13
10_S20_S0.6960.13
11_L19_C0.6940.13
49_Q126_Y0.6910.13
152_E223_N0.6860.12
115_D209_N0.6850.12
19_C56_E0.6840.12
72_Y224_K0.6840.12
53_F70_P0.6800.12
50_V74_L0.6800.12
50_V73_Y0.6740.12
108_G120_F0.6730.12
88_E104_K0.6680.12
74_L85_L0.6580.12
121_D138_T0.6570.12
49_Q82_F0.6540.12
13_L23_D0.6540.12
52_A234_F0.6540.12
90_G183_Y0.6510.12
61_Y72_Y0.6460.12
10_S13_L0.6460.12
19_C90_G0.6460.12
82_F234_F0.6450.12
138_T145_G0.6440.12
9_F13_L0.6420.12
69_E151_G0.6370.12
58_T84_M0.6360.12
5_I13_L0.6350.12
49_Q75_L0.6350.12
7_I20_S0.6350.12
67_E72_Y0.6340.12
54_Q74_L0.6330.12
122_G232_I0.6330.12
126_Y232_I0.6310.12
219_E223_N0.6260.11
133_A149_Y0.6230.11
51_P59_R0.6170.11
66_K223_N0.6170.11
60_E83_R0.6120.11
89_D117_N0.6070.11
54_Q79_L0.6060.11
69_E81_G0.6060.11
11_L16_T0.6050.11
123_H152_E0.6020.11
135_E189_V0.5990.11
188_Y201_Y0.5970.11
155_K212_Q0.5960.11
99_L222_K0.5920.11
212_Q232_I0.5880.11
87_P207_C0.5870.11
62_M190_K0.5870.11
47_L54_Q0.5860.11
189_V212_Q0.5850.11
62_M188_Y0.5840.11
61_Y105_E0.5830.11
8_C61_Y0.5820.11
123_H156_S0.5820.11
155_K164_Y0.5800.11
62_M84_M0.5790.11
72_Y198_G0.5730.11
100_T200_E0.5710.11
24_N82_F0.5690.11
108_G157_S0.5690.11
55_D84_M0.5670.11
93_L161_T0.5650.11
117_N186_F0.5650.11
114_K204_T0.5650.11
20_S83_R0.5640.11
164_Y188_Y0.5590.11
149_Y207_C0.5560.10
63_V69_E0.5530.10
46_D50_V0.5530.10
67_E81_G0.5520.10
63_V85_L0.5500.10
71_G148_D0.5490.10
183_Y189_V0.5490.10
226_E230_N0.5420.10
46_D54_Q0.5400.10
90_G201_Y0.5380.10
87_P105_E0.5360.10
195_D198_G0.5360.10
98_S116_T0.5350.10
16_T19_C0.5340.10
64_S198_G0.5330.10
45_K107_I0.5300.10
9_F17_G0.5300.10
123_H211_N0.5290.10
11_L23_D0.5270.10
171_I229_I0.5260.10
88_E209_N0.5220.10
72_Y166_A0.5220.10
9_F24_N0.5190.10
56_E151_G0.5180.10
178_K218_E0.5150.10
57_K79_L0.5140.10
68_E218_E0.5140.10
212_Q222_K0.5110.10
5_I199_V0.5100.10
155_K234_F0.5100.10
63_V141_D0.5100.10
52_A71_G0.5090.10
6_F11_L0.5080.10
17_G24_N0.5050.10
54_Q64_S0.5040.10
165_T217_D0.5020.10
19_C54_Q0.5010.10
57_K122_G0.5000.10
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  
3zbiC 1 0.1162 53 0.954 Contact Map
4jg9A 2 0.5768 44 0.956 Contact Map
4v33A 1 0.7012 10.5 0.968 Contact Map
4i0uA 4 0.1992 7.9 0.969 Contact Map
4ev6A 3 0.2075 7.1 0.97 Contact Map
2z14A 2 0.278 6.6 0.97 Contact Map
2lzrA 1 0.1867 6 0.971 Contact Map
4apwA 6 0.2282 4.6 0.973 Contact Map
4pj0U 1 0.3527 3.6 0.974 Contact Map
2zxeG 1 0.0747 3.6 0.974 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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