GREMLIN Database
YCAP - UPF0702 transmembrane protein YcaP
UniProt: P75839 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13700
Length: 230 (219)
Sequences: 279 (219)
Seq/√Len: 14.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
194_A223_A4.3561.00
194_A201_I3.1180.98
34_F141_G3.0340.98
118_L133_F2.9290.97
8_R15_P2.9000.97
28_Y74_M2.6470.95
69_Y72_V2.6300.95
162_Y176_L2.5990.95
61_S68_F2.3740.91
61_S80_V2.3640.91
73_P156_N2.3090.90
57_L66_V2.3040.90
165_E168_K2.2540.89
30_F66_V2.1890.88
42_R67_A2.1740.87
114_E119_A2.1640.87
208_E219_E2.1520.87
218_P222_K2.0740.85
118_L123_L2.0670.84
213_P216_A1.9800.82
103_D108_K1.9750.82
146_G195_C1.9300.80
44_G56_I1.9250.80
151_A159_I1.8950.79
129_T156_N1.8820.78
195_C198_C1.8710.78
15_P71_D1.8570.77
173_L177_P1.8450.77
172_G177_P1.8230.76
114_E178_S1.8220.76
29_T48_M1.7990.75
61_S64_G1.7860.74
72_V162_Y1.7760.74
88_Y132_E1.7550.73
38_K58_T1.7550.73
29_T67_A1.7050.71
143_E149_R1.7000.71
52_E64_G1.7000.71
5_D8_R1.6770.69
30_F91_V1.6260.67
44_G51_F1.5910.65
47_Q60_G1.5840.65
28_Y166_D1.5790.65
10_A199_S1.5740.64
54_L81_F1.5640.64
115_D192_D1.5610.64
68_F72_V1.5580.64
61_S65_D1.5510.63
104_L128_M1.5380.62
15_P22_V1.5180.61
28_Y78_L1.5030.61
94_L101_L1.4990.60
34_F66_V1.4790.59
10_A48_M1.4780.59
37_L65_D1.4200.56
44_G65_D1.4130.56
92_M132_E1.4080.55
205_K211_L1.3990.55
200_E216_A1.3970.55
24_L79_I1.3900.55
60_G80_V1.3440.52
105_L176_L1.3320.51
146_G198_C1.3190.51
60_G65_D1.3170.50
6_L9_M1.3020.50
68_F80_V1.3010.50
20_G100_K1.3000.49
37_L60_G1.2940.49
208_E211_L1.2930.49
201_I223_A1.2830.49
44_G156_N1.2750.48
60_G160_S1.2660.48
211_L218_P1.2590.47
44_G61_S1.2520.47
40_T73_P1.2470.47
43_R161_V1.2450.46
57_L107_G1.2400.46
90_L114_E1.2350.46
11_F16_F1.2260.45
206_A216_A1.2220.45
35_L135_M1.1940.44
120_W170_K1.1770.43
25_R43_R1.1700.42
122_K211_L1.1520.41
21_E146_G1.1410.41
103_D155_T1.1230.40
211_L219_E1.1140.39
29_T42_R1.1040.39
89_R129_T1.0930.38
90_L117_E1.0770.37
121_S124_N1.0660.37
106_E194_A1.0640.37
49_S69_Y1.0640.37
108_K115_D1.0580.36
146_G172_G1.0400.35
65_D68_F1.0390.35
51_F55_I1.0370.35
64_G77_V1.0370.35
11_F203_H1.0260.35
86_L165_E1.0260.35
19_L79_I1.0240.35
63_A81_F1.0210.34
38_K122_K1.0180.34
37_L61_S1.0130.34
23_A74_M1.0130.34
54_L113_I1.0110.34
42_R77_V1.0050.34
50_L74_M1.0020.34
36_F141_G0.9970.33
75_V97_H0.9960.33
79_I178_S0.9940.33
44_G106_E0.9910.33
172_G198_C0.9880.33
81_F132_E0.9840.33
88_Y160_S0.9780.32
43_R130_E0.9710.32
48_M67_A0.9710.32
173_L195_C0.9490.31
44_G52_E0.9470.31
12_D70_D0.9450.31
28_Y128_M0.9430.31
30_F43_R0.9420.31
48_M54_L0.9380.30
8_R137_L0.9360.30
177_P195_C0.9340.30
6_L30_F0.9320.30
183_R219_E0.9310.30
57_L95_M0.9270.30
156_N221_T0.9260.30
28_Y66_V0.9260.30
65_D132_E0.9190.30
12_D152_I0.9180.29
56_I65_D0.9050.29
82_I139_L0.9040.29
11_F17_D0.9040.29
125_N190_S0.9010.29
117_E200_E0.8970.29
86_L213_P0.8940.28
55_I113_I0.8930.28
64_G80_V0.8910.28
60_G64_G0.8910.28
59_L146_G0.8890.28
13_K142_V0.8850.28
209_K218_P0.8850.28
37_L44_G0.8800.28
70_D148_V0.8740.27
43_R53_V0.8730.27
113_I219_E0.8710.27
21_E25_R0.8660.27
177_P198_C0.8560.27
52_E145_L0.8540.27
125_N166_D0.8460.26
97_H124_N0.8380.26
115_D189_E0.8360.26
68_F73_P0.8350.26
60_G72_V0.8330.26
179_D224_S0.8330.26
64_G68_F0.8310.26
112_I123_L0.8310.26
51_F132_E0.8300.26
112_I118_L0.8230.25
190_S218_P0.8210.25
10_A32_L0.8160.25
132_E149_R0.8150.25
87_L156_N0.8150.25
213_P218_P0.8140.25
165_E201_I0.8140.25
58_T84_L0.8120.25
113_I149_R0.8080.25
31_V35_L0.8070.25
25_R30_F0.8050.25
132_E160_S0.8050.25
56_I132_E0.8050.25
82_I167_D0.8000.24
142_V185_K0.7990.24
91_V213_P0.7980.24
30_F59_L0.7960.24
74_M141_G0.7930.24
210_Q216_A0.7910.24
212_C215_C0.7870.24
205_K210_Q0.7870.24
120_W125_N0.7870.24
91_V139_L0.7810.24
5_D11_F0.7760.23
52_E88_Y0.7720.23
46_R95_M0.7710.23
34_F67_A0.7700.23
31_V90_L0.7690.23
63_A69_Y0.7680.23
43_R49_S0.7590.23
115_D167_D0.7580.23
32_L113_I0.7510.22
85_A96_A0.7490.22
21_E142_V0.7470.22
42_R92_M0.7440.22
112_I126_S0.7390.22
57_L159_I0.7390.22
88_Y92_M0.7390.22
8_R152_I0.7380.22
145_L172_G0.7380.22
22_V52_E0.7370.22
219_E222_K0.7360.22
8_R12_D0.7360.22
21_E59_L0.7300.22
74_M150_L0.7290.22
55_I73_P0.7270.21
45_V65_D0.7250.21
29_T57_L0.7230.21
38_K66_V0.7190.21
146_G177_P0.7180.21
82_I113_I0.7170.21
196_I209_K0.7160.21
27_L209_K0.7150.21
33_V150_L0.7150.21
21_E195_C0.7070.21
179_D185_K0.7070.21
82_I148_V0.7030.21
11_F216_A0.7000.20
185_K213_P0.6940.20
130_E219_E0.6930.20
22_V68_F0.6840.20
172_G195_C0.6840.20
217_N221_T0.6840.20
81_F129_T0.6820.20
120_W126_S0.6770.20
5_D17_D0.6770.20
6_L223_A0.6740.20
112_I121_S0.6650.19
185_K206_A0.6620.19
77_V80_V0.6550.19
22_V58_T0.6550.19
22_V29_T0.6460.19
114_E122_K0.6450.19
78_L222_K0.6430.18
92_M131_F0.6420.18
32_L78_L0.6410.18
144_Q147_Q0.6410.18
125_N218_P0.6410.18
38_K104_L0.6410.18
36_F57_L0.6410.18
73_P143_E0.6400.18
53_V128_M0.6390.18
35_L82_I0.6390.18
26_S53_V0.6370.18
56_I64_G0.6340.18
47_Q56_I0.6340.18
58_T61_S0.6330.18
6_L17_D0.6330.18
63_A66_V0.6300.18
173_L198_C0.6260.18
35_L115_D0.6260.18
113_I131_F0.6250.18
189_E204_M0.6230.18
210_Q222_K0.6200.18
151_A161_V0.6180.18
5_D167_D0.6160.18
114_E129_T0.6150.18
129_T221_T0.6110.17
57_L105_L0.6100.17
24_L104_L0.6090.17
66_V77_V0.6080.17
40_T55_I0.6070.17
9_M204_M0.5950.17
209_K213_P0.5940.17
196_I201_I0.5920.17
186_V192_D0.5910.17
86_L204_M0.5900.17
20_G115_D0.5890.17
56_I62_A0.5890.17
25_R73_P0.5860.17
36_F149_R0.5800.16
36_F56_I0.5780.16
145_L173_L0.5760.16
129_T199_S0.5740.16
206_A219_E0.5740.16
40_T112_I0.5740.16
50_L176_L0.5710.16
56_I133_F0.5710.16
62_A81_F0.5670.16
46_R214_R0.5660.16
20_G211_L0.5660.16
24_L28_Y0.5660.16
101_L105_L0.5660.16
49_S64_G0.5640.16
35_L39_M0.5630.16
202_I206_A0.5620.16
42_R48_M0.5620.16
75_V146_G0.5600.16
98_S188_P0.5600.16
9_M206_A0.5590.16
185_K211_L0.5550.16
21_E198_C0.5550.16
171_P202_I0.5510.16
66_V135_M0.5500.16
49_S106_E0.5490.15
64_G173_L0.5490.15
210_Q218_P0.5460.15
19_L216_A0.5450.15
106_E132_E0.5430.15
63_A109_P0.5380.15
206_A213_P0.5370.15
205_K218_P0.5350.15
58_T81_F0.5340.15
147_Q169_V0.5330.15
98_S170_K0.5320.15
51_F88_Y0.5280.15
192_D201_I0.5270.15
23_A103_D0.5240.15
7_H222_K0.5210.15
51_F56_I0.5210.15
101_L124_N0.5200.15
46_R88_Y0.5180.15
105_L112_I0.5180.15
190_S205_K0.5170.15
37_L45_V0.5160.15
63_A132_E0.5150.15
72_V142_V0.5150.15
11_F158_Q0.5150.15
217_N222_K0.5140.15
44_G88_Y0.5080.14
209_K221_T0.5070.14
6_L78_L0.5070.14
198_C215_C0.5050.14
203_H211_L0.5050.14
49_S52_E0.5030.14
21_E35_L0.5010.14
22_V38_K0.5000.14
113_I130_E0.5000.14
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  
3c6fA 4 0.4739 99.8 0.746 Contact Map
3eyyA 2 0.4609 71.3 0.947 Contact Map
2kdxA 1 0.4565 71.3 0.947 Contact Map
4aybP 1 0.1609 70.1 0.948 Contact Map
3h0gL 1 0.1783 66.9 0.949 Contact Map
3h7hA 1 0.2261 65.4 0.95 Contact Map
1twfL 1 0.1826 64.9 0.95 Contact Map
5aunA 1 0.4565 64.1 0.95 Contact Map
2ayjA 1 0.2348 60.6 0.951 Contact Map
4qiwP 1 0.1522 58.1 0.952 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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