GREMLIN Database
YXBD - Uncharacterized protein YxbD
UniProt: P46328 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 159 (153)
Sequences: 178 (153)
Seq/√Len: 12.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
110_L154_L5.4991.00
64_C95_I4.6751.00
103_T128_V4.1671.00
126_N129_E4.0060.99
130_T133_K3.9720.99
87_E156_K3.3780.98
119_R150_D3.2020.97
53_G79_G2.6920.93
87_E118_Y2.6720.93
56_T70_D2.6450.92
55_I86_A2.2880.85
30_S124_F2.2460.84
118_Y156_K2.1960.82
27_M68_S2.1730.82
39_L67_I2.1730.82
124_F153_L2.1280.80
97_Q155_V1.8590.70
17_F21_H1.7050.63
18_F36_C1.6490.61
36_C68_S1.6480.61
29_I67_I1.6390.60
30_S101_I1.5810.57
86_A90_C1.5770.57
55_I66_I1.5400.55
83_L91_R1.4870.52
120_L154_L1.4700.52
24_S103_T1.4500.51
6_T11_K1.4220.49
24_S54_L1.4220.49
52_V143_D1.4190.49
22_W105_D1.4100.49
66_I118_Y1.4090.49
128_V131_A1.3460.45
12_D16_A1.3460.45
54_L70_D1.3270.44
120_L147_P1.3180.44
71_S74_E1.3110.44
111_A142_A1.2870.42
49_N60_E1.2800.42
120_L152_L1.2730.42
32_G67_I1.2400.40
42_Y55_I1.2380.40
35_N38_E1.2290.39
68_S74_E1.2050.38
40_D67_I1.2020.38
30_S128_V1.1960.38
80_T116_R1.1880.38
29_I34_Y1.1840.37
97_Q122_R1.1740.37
110_L120_L1.1650.36
91_R98_I1.1240.34
59_F64_C1.1220.34
18_F156_K1.1130.34
86_A98_I1.1110.34
4_I10_P1.1080.34
87_E150_D1.0970.33
107_I144_N1.0920.33
56_T68_S1.0700.32
18_F87_E1.0640.32
42_Y71_S1.0290.30
32_G156_K1.0260.30
95_I100_L1.0230.30
120_L123_L1.0070.29
32_G36_C0.9920.29
54_L103_T0.9840.28
107_I121_D0.9800.28
108_H144_N0.9690.28
119_R149_R0.9650.28
32_G87_E0.9650.28
27_M36_C0.9520.27
42_Y83_L0.9450.27
45_L96_K0.9440.27
10_P85_K0.9310.26
14_V24_S0.9290.26
101_I124_F0.9250.26
61_E93_R0.9230.26
94_N157_E0.9200.26
24_S128_V0.9190.26
62_D95_I0.9160.26
31_S67_I0.9150.26
14_V123_L0.9090.25
37_D152_L0.9070.25
28_V33_I0.9050.25
74_E144_N0.8990.25
126_N149_R0.8990.25
75_N154_L0.8980.25
44_M97_Q0.8980.25
73_I76_K0.8930.25
63_A99_K0.8890.25
142_A148_I0.8800.24
36_C150_D0.8800.24
90_C95_I0.8790.24
8_Q61_E0.8740.24
150_D156_K0.8700.24
26_Q71_S0.8690.24
59_F63_A0.8650.24
49_N62_D0.8610.24
6_T41_G0.8560.23
38_E62_D0.8520.23
35_N40_D0.8500.23
30_S67_I0.8470.23
25_P35_N0.8440.23
62_D80_T0.8360.23
66_I126_N0.8320.22
59_F95_I0.8290.22
17_F36_C0.8280.22
57_Y88_E0.8280.22
30_S34_Y0.8270.22
41_G66_I0.8240.22
82_L151_E0.8240.22
42_Y70_D0.8200.22
103_T123_L0.8190.22
55_I78_I0.8120.22
4_I18_F0.8100.22
34_Y87_E0.8100.22
131_A156_K0.8090.22
11_K148_I0.8010.21
61_E96_K0.7890.21
32_G118_Y0.7890.21
45_L84_E0.7870.21
120_L125_V0.7870.21
86_A95_I0.7830.21
115_K126_N0.7830.21
76_K115_K0.7780.21
79_G102_T0.7730.20
111_A144_N0.7710.20
80_T108_H0.7700.20
26_Q33_I0.7650.20
30_S36_C0.7590.20
52_V67_I0.7550.20
36_C40_D0.7500.20
115_K134_M0.7460.20
46_N96_K0.7460.20
92_E98_I0.7410.19
30_S150_D0.7380.19
21_H126_N0.7370.19
11_K31_S0.7340.19
98_I120_L0.7240.19
59_F100_L0.7200.19
128_V148_I0.7170.19
65_E102_T0.7150.19
61_E94_N0.7110.18
16_A48_D0.7110.18
76_K96_K0.7040.18
41_G71_S0.6990.18
57_Y89_A0.6990.18
91_R123_L0.6970.18
80_T89_A0.6920.18
34_Y67_I0.6890.18
64_C86_A0.6850.18
74_E108_H0.6850.18
60_E66_I0.6820.18
89_A118_Y0.6760.17
36_C72_V0.6750.17
90_C142_A0.6740.17
21_H72_V0.6650.17
49_N121_D0.6640.17
57_Y135_K0.6620.17
107_I120_L0.6610.17
125_V155_V0.6580.17
18_F54_L0.6580.17
49_N89_A0.6530.17
31_S34_Y0.6520.17
75_N108_H0.6520.17
108_H155_V0.6500.17
57_Y131_A0.6480.17
85_K94_N0.6470.17
85_K142_A0.6450.17
4_I8_Q0.6440.17
94_N141_L0.6420.16
67_I99_K0.6400.16
20_K137_E0.6330.16
147_P155_V0.6320.16
119_R129_E0.6300.16
61_E88_E0.6290.16
34_Y156_K0.6240.16
49_N92_E0.6230.16
86_A154_L0.6190.16
18_F31_S0.6180.16
41_G137_E0.6130.16
58_I108_H0.6110.16
71_S75_N0.6090.16
124_F152_L0.6030.15
4_I19_Q0.5950.15
21_H70_D0.5950.15
17_F83_L0.5880.15
120_L142_A0.5870.15
18_F30_S0.5820.15
79_G100_L0.5810.15
34_Y99_K0.5750.15
12_D20_K0.5750.15
53_G102_T0.5560.14
41_G116_R0.5550.14
88_E141_L0.5540.14
21_H149_R0.5540.14
93_R107_I0.5520.14
73_I96_K0.5500.14
68_S156_K0.5500.14
37_D60_E0.5500.14
58_I145_K0.5450.14
33_I72_V0.5450.14
4_I43_G0.5420.14
46_N50_Q0.5400.14
21_H54_L0.5380.14
68_S140_L0.5360.14
60_E67_I0.5360.14
131_A135_K0.5350.14
63_A71_S0.5340.14
88_E91_R0.5320.14
102_T151_E0.5310.14
16_A141_L0.5310.14
111_A146_I0.5260.13
14_V35_N0.5250.13
81_A137_E0.5250.13
107_I147_P0.5210.13
8_Q140_L0.5210.13
111_A116_R0.5210.13
49_N134_M0.5180.13
25_P37_D0.5170.13
124_F149_R0.5150.13
125_V157_E0.5110.13
64_C90_C0.5100.13
41_G55_I0.5090.13
139_P151_E0.5070.13
121_D127_A0.5060.13
10_P136_P0.5040.13
23_G154_L0.5030.13
98_I122_R0.5020.13
111_A143_D0.5020.13
6_T123_L0.5000.13
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  
1y9kA 1 0.9245 99.6 0.769 Contact Map
3dr6A 2 0.9057 99.6 0.772 Contact Map
2j8mA 2 0.9119 99.6 0.772 Contact Map
2oh1A 1 0.8616 99.5 0.778 Contact Map
1n71A 4 0.8805 99.5 0.778 Contact Map
4luaA 1 0.8868 99.5 0.781 Contact Map
3zj0A 1 0.8428 99.5 0.781 Contact Map
2fiaA 1 0.8931 99.5 0.784 Contact Map
1s3zA 2 0.8176 99.5 0.784 Contact Map
3g8wA 2 0.8931 99.5 0.784 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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