GREMLIN Database
YWPF - Uncharacterized protein YwpF
UniProt: P94588 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 136 (130)
Sequences: 147 (110)
Seq/√Len: 9.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
119_V129_I3.8010.98
110_G114_I3.8000.98
5_K28_D3.3800.96
9_L97_V2.8380.90
11_V25_P2.4410.81
115_L128_L2.2810.76
7_V34_K2.2790.76
6_L30_L2.2400.74
5_K79_A2.1880.73
6_L45_A2.1070.70
52_L56_E2.0940.69
67_V99_L2.0790.69
59_Q85_V1.9740.64
81_L110_G1.8850.61
30_L45_A1.8210.58
39_N73_K1.8160.58
73_K133_K1.8050.57
67_V83_A1.7360.54
60_N129_I1.7260.54
42_L100_Y1.6910.52
6_L69_V1.6890.52
31_I112_E1.6880.52
116_E120_K1.6810.52
3_T51_H1.6740.51
42_L56_E1.6340.50
47_V62_Q1.6210.49
52_L90_K1.6140.49
9_L45_A1.5920.48
6_L73_K1.4370.41
49_K90_K1.4340.41
44_E81_L1.4200.40
67_V129_I1.3930.39
81_L114_I1.3750.38
57_Q60_N1.3660.38
27_I56_E1.3640.38
34_K100_Y1.3500.37
126_T130_E1.3070.35
118_L132_F1.3050.35
42_L86_K1.3050.35
28_D112_E1.2920.35
97_V127_K1.2780.34
119_V126_T1.2680.34
23_Q42_L1.2350.32
15_D120_K1.2140.32
85_V88_I1.1910.31
37_G70_T1.1700.30
91_L99_L1.1510.29
28_D132_F1.1480.29
82_T131_A1.1430.29
34_K123_Y1.1220.28
22_E55_F1.1200.28
15_D93_E1.1080.28
75_S105_T1.1070.28
34_K77_R1.1050.27
53_S56_E1.0940.27
96_Q100_Y1.0910.27
99_L130_E1.0900.27
72_T104_V1.0770.26
96_Q103_M1.0590.26
106_R130_E1.0440.25
63_S127_K1.0270.25
70_T96_Q1.0200.25
33_N78_P1.0180.24
74_K100_Y1.0100.24
47_V57_Q1.0060.24
52_L97_V0.9760.23
85_V99_L0.9710.23
8_D31_I0.9540.22
33_N103_M0.9530.22
74_K117_S0.9530.22
9_L46_L0.9450.22
23_Q43_I0.9420.22
107_K123_Y0.9380.22
111_T114_I0.9320.22
30_L133_K0.9310.22
98_L103_M0.9290.22
36_D98_L0.9270.22
37_G54_F0.9240.21
45_A133_K0.9080.21
36_D46_L0.9040.21
55_F85_V0.8970.21
15_D43_I0.8910.20
14_V20_S0.8910.20
89_V96_Q0.8860.20
24_F42_L0.8740.20
57_Q65_A0.8740.20
34_K111_T0.8690.20
96_Q111_T0.8650.20
26_L29_G0.8650.20
87_N95_I0.8410.19
105_T108_Q0.8290.19
15_D127_K0.8260.19
40_H84_A0.8120.18
109_Q131_A0.8090.18
37_G85_V0.8090.18
47_V92_E0.8080.18
110_G116_E0.8060.18
106_R123_Y0.8010.18
72_T102_Q0.8000.18
54_F123_Y0.7980.18
60_N65_A0.7950.18
99_L127_K0.7940.18
14_V72_T0.7900.18
61_S87_N0.7870.18
51_H82_T0.7850.18
91_L95_I0.7850.18
39_N75_S0.7780.17
131_A134_Q0.7770.17
35_E118_L0.7690.17
25_P98_L0.7550.17
6_L66_K0.7550.17
31_I122_G0.7540.17
51_H68_F0.7540.17
10_N85_V0.7530.17
85_V98_L0.7490.17
55_F122_G0.7450.17
6_L133_K0.7420.16
30_L73_K0.7370.16
115_L118_L0.7370.16
5_K103_M0.7350.16
11_V120_K0.7290.16
26_L81_L0.7260.16
81_L91_L0.7250.16
67_V109_Q0.7220.16
47_V124_T0.7180.16
107_K111_T0.7160.16
46_L64_E0.7130.16
72_T98_L0.7090.16
45_A73_K0.7000.15
120_K129_I0.6970.15
58_L65_A0.6960.15
30_L74_K0.6950.15
42_L52_L0.6770.15
43_I67_V0.6730.15
119_V125_G0.6710.15
24_F107_K0.6650.15
7_V64_E0.6600.15
43_I131_A0.6590.15
26_L69_V0.6550.14
25_P129_I0.6480.14
39_N108_Q0.6430.14
116_E129_I0.6390.14
62_Q94_S0.6360.14
123_Y130_E0.6310.14
69_V82_T0.6300.14
46_L108_Q0.6290.14
13_R51_H0.6280.14
92_E131_A0.6150.14
91_L109_Q0.6150.14
88_I106_R0.6140.14
36_D73_K0.6130.14
11_V125_G0.6120.13
9_L58_L0.6110.13
30_L77_R0.6110.13
30_L37_G0.6100.13
70_T91_L0.6100.13
57_Q121_E0.6070.13
20_S130_E0.6060.13
12_E126_T0.6050.13
24_F59_Q0.6050.13
3_T85_V0.6020.13
72_T95_I0.6000.13
112_E130_E0.5980.13
69_V113_T0.5890.13
8_D12_E0.5880.13
65_A129_I0.5860.13
70_T100_Y0.5850.13
111_T116_E0.5830.13
9_L30_L0.5820.13
57_Q84_A0.5740.13
48_Q87_N0.5700.13
49_K87_N0.5640.13
46_L131_A0.5600.12
3_T20_S0.5570.12
15_D90_K0.5500.12
36_D39_N0.5460.12
44_E115_L0.5460.12
81_L89_V0.5440.12
30_L34_K0.5390.12
7_V110_G0.5360.12
74_K83_A0.5360.12
42_L125_G0.5350.12
6_L39_N0.5240.12
34_K74_K0.5240.12
43_I94_S0.5230.12
24_F55_F0.5220.12
25_P55_F0.5200.12
86_K100_Y0.5180.12
53_S130_E0.5160.12
28_D115_L0.5110.12
5_K126_T0.5080.11
59_Q69_V0.5070.11
28_D128_L0.5020.11
7_V82_T0.5010.11
31_I72_T0.5000.11
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  
4qxzA 2 0.9779 100 0.051 Contact Map
1w5rA 2 0.9853 16.7 0.944 Contact Map
4dmoA 1 0.9559 12.9 0.947 Contact Map
4am6A 1 0.9706 8.2 0.952 Contact Map
1g2yA 4 0.2279 7.7 0.952 Contact Map
2mjfB 1 0.6103 7.4 0.953 Contact Map
4c5pA 1 0.9853 6.8 0.953 Contact Map
4nv8A 2 0.9779 5.7 0.955 Contact Map
2wgoA 1 0.2574 5.3 0.956 Contact Map
1e2tA 5 0.9779 5.2 0.956 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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