GREMLIN Database
YDCG - UPF0310 protein YdcG
UniProt: P96624 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 146 (135)
Sequences: 228 (164)
Seq/√Len: 14.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
47_S62_T3.9801.00
8_G24_A3.5760.99
76_Q79_P3.5730.99
8_G26_L3.1130.98
10_V43_L2.9340.97
127_K131_L2.8180.96
31_K35_A2.5880.94
24_A45_Y2.5860.94
15_V63_A2.2810.89
114_L129_D2.2380.88
67_V88_I2.1820.86
5_Y130_F2.1580.86
115_G129_D2.1390.85
108_V113_H2.1220.85
7_I123_F2.0980.84
69_S87_D2.0760.83
75_Y82_I2.0240.82
15_V45_Y2.0200.81
37_M122_H1.9630.79
50_D55_G1.9420.79
4_N124_E1.9020.77
55_G58_L1.7580.71
107_F118_F1.7480.71
84_Y132_T1.7010.69
108_V118_F1.6300.65
7_I125_I1.6170.65
26_L122_H1.5780.63
27_C75_Y1.5580.62
37_M130_F1.4890.58
49_R55_G1.3990.53
12_E113_H1.3540.51
73_Y87_D1.3180.49
42_W66_K1.3150.49
7_I42_W1.2790.47
90_Y108_V1.2470.45
27_C33_P1.2460.45
14_H28_H1.2390.44
12_E58_L1.2370.44
90_Y118_F1.2280.44
42_W130_F1.2190.43
15_V19_A1.2190.43
8_G45_Y1.2180.43
21_G43_L1.2180.43
107_F125_I1.1940.42
7_I118_F1.1860.42
98_F133_I1.1840.41
8_G122_H1.1540.40
25_Q85_R1.1420.39
4_N57_L1.1150.38
84_Y99_Y1.1120.38
44_I125_I1.1010.37
107_F129_D1.0980.37
8_G88_I1.0570.35
102_K107_F1.0570.35
102_K118_F1.0460.34
7_I107_F1.0450.34
102_K110_E1.0400.34
63_A90_Y1.0280.34
32_A67_V1.0090.33
47_S61_F1.0040.32
72_I124_E1.0000.32
96_I100_D0.9980.32
62_T125_I0.9960.32
54_D57_L0.9910.32
74_P82_I0.9870.32
5_Y42_W0.9850.31
110_E113_H0.9830.31
69_S86_L0.9820.31
26_L45_Y0.9800.31
43_L107_F0.9800.31
5_Y124_E0.9750.31
111_T118_F0.9730.31
99_Y102_K0.9690.31
50_D58_L0.9660.31
15_V90_Y0.9490.30
100_D107_F0.9440.30
109_Q127_K0.9430.30
105_L129_D0.9360.29
65_G97_G0.9280.29
12_E95_K0.9110.28
107_F123_F0.9090.28
106_E126_S0.8990.28
19_A90_Y0.8980.28
105_L114_L0.8970.28
65_G88_I0.8790.27
76_Q80_N0.8780.27
101_I133_I0.8710.26
23_F36_K0.8700.26
5_Y127_K0.8670.26
27_C77_M0.8650.26
51_A104_K0.8550.26
51_A92_P0.8420.25
101_I114_L0.8320.25
100_D114_L0.8250.24
52_Y123_F0.8220.24
108_V111_T0.8200.24
62_T86_L0.8010.24
26_L32_A0.7980.23
8_G43_L0.7970.23
35_A92_P0.7950.23
109_Q113_H0.7900.23
10_V120_R0.7890.23
64_I72_I0.7800.23
98_F115_G0.7790.23
26_L57_L0.7730.22
9_V45_Y0.7720.22
30_K40_G0.7530.22
63_A118_F0.7450.21
68_K87_D0.7440.21
37_M49_R0.7420.21
86_L121_G0.7400.21
10_V49_R0.7360.21
116_F120_R0.7350.21
106_E128_K0.7340.21
63_A130_F0.7300.21
12_E16_L0.7300.21
25_Q81_F0.7290.21
39_E70_G0.7260.21
25_Q28_H0.7240.21
15_V24_A0.7200.21
7_I31_K0.7170.20
15_V62_T0.7160.20
24_A37_M0.7140.20
14_H25_Q0.7130.20
23_F87_D0.7050.20
64_I93_C0.7040.20
18_G84_Y0.6940.20
27_C85_R0.6920.20
94_H97_G0.6920.20
13_Q26_L0.6880.19
15_V47_S0.6870.19
10_V53_P0.6820.19
10_V45_Y0.6810.19
27_C81_F0.6800.19
98_F114_L0.6740.19
98_F102_K0.6700.19
23_F78_A0.6680.19
80_N120_R0.6670.19
10_V17_K0.6630.19
10_V51_A0.6620.19
59_R120_R0.6500.18
51_A112_K0.6490.18
58_L138_G0.6420.18
47_S64_I0.6390.18
124_E127_K0.6370.18
101_I129_D0.6340.18
52_Y131_L0.6330.18
5_Y89_D0.6290.17
59_R123_F0.6250.17
62_T124_E0.6190.17
20_A51_A0.6180.17
101_I115_G0.6140.17
47_S86_L0.6070.17
4_N72_I0.6070.17
70_G106_E0.6000.17
74_P84_Y0.6000.17
115_G133_I0.5990.17
105_L115_G0.5980.17
60_S95_K0.5970.16
129_D136_A0.5940.16
111_T115_G0.5930.16
111_T129_D0.5900.16
48_P97_G0.5840.16
27_C82_I0.5830.16
100_D115_G0.5820.16
102_K108_V0.5820.16
67_V84_Y0.5810.16
131_L138_G0.5750.16
95_K111_T0.5730.16
82_I109_Q0.5730.16
19_A72_I0.5720.16
7_I74_P0.5720.16
93_C118_F0.5680.16
33_P84_Y0.5650.16
15_V44_I0.5620.15
51_A54_D0.5600.15
26_L87_D0.5530.15
83_P137_M0.5520.15
47_S63_A0.5510.15
66_K135_Q0.5440.15
101_I110_E0.5440.15
44_I130_F0.5440.15
128_K136_A0.5410.15
12_E35_A0.5330.15
107_F115_G0.5320.15
115_G136_A0.5260.14
108_V114_L0.5210.14
81_F133_I0.5190.14
96_I136_A0.5190.14
128_K132_T0.5150.14
116_F129_D0.5140.14
37_M79_P0.5110.14
44_I134_A0.5090.14
4_N44_I0.5070.14
96_I126_S0.5060.14
80_N90_Y0.5060.14
19_A56_K0.5050.14
66_K91_Y0.5050.14
13_Q132_T0.5030.14
78_A87_D0.5010.14
60_S86_L0.5000.14
50_D99_Y0.5000.14
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  
2hd9A 1 0.9315 100 0.572 Contact Map
2p5dA 1 0.911 100 0.597 Contact Map
1zceA 1 0.8699 96.4 0.903 Contact Map
2gbsA 1 0.863 95.4 0.911 Contact Map
2ar1A 1 0.863 95.3 0.911 Contact Map
2eveA 1 0.8219 94.3 0.916 Contact Map
4q4gX 1 0.589 45.3 0.949 Contact Map
3eopA 1 0.8425 21.5 0.957 Contact Map
3pbiA 1 0.5822 18.5 0.958 Contact Map
2wtpA 2 0.3493 15.1 0.96 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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