GREMLIN Database
YIAM - 2,3-diketo-L-gulonate TRAP transporter small permease protein YiaM
UniProt: P37674 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12281
Length: 157 (141)
Sequences: 6082 (4751)
Seq/√Len: 400.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
73_S76_W3.1111.00
66_T70_E2.6631.00
89_L133_A2.5581.00
72_L76_W2.4561.00
20_V41_S2.3931.00
22_I34_I2.3301.00
75_A78_R2.3251.00
82_L140_L2.2671.00
47_W124_A2.2371.00
25_I30_F2.1541.00
56_A61_A2.1521.00
88_I136_E2.0751.00
5_L135_F1.9101.00
72_L80_V1.9081.00
25_I29_G1.8461.00
93_G97_W1.7661.00
76_W79_R1.7461.00
92_C129_S1.6821.00
99_A129_S1.6651.00
92_C132_I1.6491.00
97_W101_L1.6431.00
135_F138_R1.6431.00
96_A133_A1.6321.00
117_P120_L1.6231.00
26_L30_F1.5741.00
111_S114_L1.5561.00
75_A79_R1.5491.00
85_H143_L1.5401.00
99_A126_L1.5381.00
96_A130_L1.5291.00
79_R83_V1.5121.00
60_N139_H1.4981.00
53_A132_I1.4961.00
104_I107_W1.4441.00
57_F132_I1.4411.00
93_G133_A1.4241.00
22_I26_L1.3861.00
21_F25_I1.3851.00
89_L140_L1.3831.00
43_Y111_S1.3801.00
45_F49_T1.3691.00
123_A126_L1.3621.00
103_T123_A1.3611.00
54_I135_F1.3541.00
111_S118_I1.3361.00
107_W119_G1.3241.00
26_L34_I1.3221.00
82_L144_I1.3191.00
39_E111_S1.3041.00
89_L136_E1.2991.00
104_I108_S1.2941.00
92_C133_A1.2921.00
69_V81_A1.2901.00
6_E55_V1.2731.00
95_L129_S1.2711.00
55_V59_D1.2671.00
15_V44_L1.2171.00
123_A127_P1.2071.00
96_A129_S1.1961.00
57_F136_E1.1901.00
85_H140_L1.1751.00
7_A11_I1.1741.00
12_N48_L1.1701.00
19_I44_L1.1581.00
40_L114_L1.1571.00
96_A100_T1.1561.00
74_P77_Q1.1471.00
86_S90_F1.1371.00
34_I37_V1.1161.00
43_Y121_M1.1121.00
64_Q81_A1.1061.00
23_N38_D1.1031.00
99_A125_C1.1031.00
124_A128_T1.0761.00
83_V87_L1.0731.00
42_R46_V1.0461.00
60_N64_Q1.0351.00
81_A143_L1.0291.00
92_C136_E1.0141.00
43_Y118_I1.0101.00
138_R142_Q0.9921.00
38_D42_R0.9841.00
23_N37_V0.9741.00
79_R82_L0.9681.00
137_L141_Y0.9581.00
103_T126_L0.9481.00
17_S21_F0.9471.00
14_A18_C0.9391.00
85_H139_H0.9371.00
19_I40_L0.9231.00
54_I128_T0.9201.00
76_W80_V0.9191.00
26_L32_T0.9171.00
16_L41_S0.9161.00
12_N44_L0.9021.00
56_A62_H0.8981.00
23_N33_S0.8831.00
64_Q69_V0.8821.00
80_V84_T0.8791.00
74_P78_R0.8661.00
69_V80_V0.8641.00
111_S115_G0.8631.00
10_A14_A0.8561.00
13_L48_L0.8531.00
26_L29_G0.8361.00
54_I131_V0.8311.00
67_F71_K0.8201.00
11_I15_V0.8141.00
100_T103_T0.8101.00
90_F93_G0.8021.00
77_Q81_A0.7991.00
23_N34_I0.7981.00
105_Q108_S0.7961.00
16_L48_L0.7921.00
109_D112_P0.7801.00
98_G101_L0.7761.00
124_A127_P0.7731.00
135_F139_H0.7681.00
118_I121_M0.7681.00
94_A98_G0.7581.00
103_T119_G0.7541.00
139_H142_Q0.7511.00
88_I92_C0.7391.00
128_T131_V0.7361.00
12_N47_W0.7301.00
140_L144_I0.7291.00
65_V68_L0.7261.00
110_Y115_G0.7241.00
139_H143_L0.7211.00
109_D118_I0.7141.00
73_S79_R0.7061.00
58_M135_F0.7011.00
15_V19_I0.6921.00
18_C22_I0.6921.00
74_P79_R0.6891.00
52_G56_A0.6891.00
40_L44_L0.6881.00
85_H136_E0.6830.99
5_L9_L0.6780.99
7_A10_A0.6700.99
22_I37_V0.6700.99
53_A56_A0.6680.99
24_I28_Y0.6670.99
68_L71_K0.6670.99
120_L124_A0.6560.99
105_Q119_G0.6550.99
29_G32_T0.6540.99
68_L72_L0.6540.99
69_V84_T0.6440.99
136_E139_H0.6440.99
47_W51_I0.6420.99
58_M138_R0.6400.99
89_L137_L0.6360.99
69_V77_Q0.6360.99
60_N143_L0.6320.99
9_L51_I0.6300.99
99_A103_T0.6280.99
107_W117_P0.6260.99
89_L93_G0.6250.99
91_I95_L0.6230.99
57_F139_H0.6230.99
95_L125_C0.6220.99
116_L120_L0.6220.99
110_Y113_I0.6170.99
119_G123_A0.6160.99
23_N26_L0.6130.99
78_R143_L0.6120.99
96_A99_A0.6110.99
36_S40_L0.6110.99
118_I122_Y0.6040.99
82_L86_S0.6020.99
105_Q109_D0.6000.99
26_L33_S0.5950.99
6_E9_L0.5880.98
19_I37_V0.5860.98
60_N81_A0.5840.98
133_A137_L0.5820.98
46_V50_F0.5790.98
129_S133_A0.5770.98
65_V84_T0.5710.98
50_F125_C0.5700.98
102_K122_Y0.5700.98
38_D41_S0.5690.98
9_L55_V0.5610.98
127_P131_V0.5600.98
5_L54_I0.5600.98
6_E10_A0.5570.98
15_V40_L0.5570.98
134_F138_R0.5520.98
53_A62_H0.5520.98
16_L45_F0.5460.98
49_T128_T0.5460.98
82_L85_H0.5430.97
23_N41_S0.5410.97
35_L113_I0.5390.97
23_N42_R0.5370.97
46_V49_T0.5360.97
81_A84_T0.5320.97
76_W82_L0.5280.97
85_H89_L0.5250.97
86_S140_L0.5250.97
54_I58_M0.5240.97
69_V72_L0.5240.97
24_I29_G0.5240.97
126_L130_L0.5230.97
106_D109_D0.5160.97
16_L37_V0.5110.96
4_I7_A0.5090.96
50_F128_T0.5090.96
82_L143_L0.5070.96
45_F48_L0.5030.96
78_R81_A0.5000.96
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  
2kncA 1 0.3248 23.8 0.92 Contact Map
2odbB 1 0.2038 9.8 0.933 Contact Map
2ov2I 1 0.2038 9.8 0.933 Contact Map
4ev6A 3 0.3885 8.8 0.934 Contact Map
2l8sA 1 0.2866 7.7 0.936 Contact Map
2wswA 3 0.5987 7.3 0.937 Contact Map
4i0uA 4 0.3758 6.8 0.938 Contact Map
4ltoA 3 0.6624 6.5 0.938 Contact Map
1rz2A 1 0.1847 6 0.939 Contact Map
2qmeI 1 0.1338 5.6 0.94 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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