GREMLIN Database
YRKE - Uncharacterized protein YrkE
UniProt: P54432 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 160 (155)
Sequences: 597 (313)
Seq/√Len: 25.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
117_K140_D4.8241.00
147_Y157_N4.7951.00
122_T141_Y4.1441.00
20_A48_A4.1211.00
29_G144_V3.7781.00
12_L39_I3.3051.00
94_N98_K3.1341.00
28_N114_Q2.9661.00
31_A116_V2.6390.99
21_M92_I2.4720.99
151_A156_V2.3740.98
102_L106_Q2.3300.98
78_G89_P2.1550.97
36_E117_K2.1260.96
47_N70_M2.0740.96
109_E113_E2.0570.96
24_Y39_I1.9820.95
24_Y108_I1.9160.94
35_H152_E1.9150.94
24_Y41_H1.9080.94
38_T119_V1.9020.93
7_R36_E1.8920.93
39_I118_L1.8500.92
92_I127_L1.7370.90
70_M73_G1.7290.90
90_K93_K1.6970.89
125_M135_L1.6660.88
62_L94_N1.6560.87
147_Y156_V1.6530.87
60_G63_E1.6420.87
28_N111_A1.6340.87
75_D93_K1.6290.87
89_P92_I1.6110.86
12_L23_A1.6060.86
111_A116_V1.6040.86
147_Y151_A1.5790.85
10_I160_I1.5560.84
74_A93_K1.5510.84
119_V142_A1.4510.79
11_V26_I1.3680.75
9_T147_Y1.3640.75
112_Q138_D1.3630.75
99_H127_L1.3560.74
77_M80_S1.3450.74
89_P93_K1.3240.73
10_I26_I1.2990.71
14_S19_K1.2990.71
11_V61_F1.2910.71
106_Q110_M1.2370.67
50_R73_G1.2010.65
55_I72_R1.1860.64
25_I107_L1.1750.63
8_T35_H1.1720.63
75_D105_P1.1570.62
49_L136_L1.1250.60
35_H155_S1.1190.59
6_K35_H1.1160.59
84_F89_P1.0950.58
26_I144_V1.0820.57
25_I92_I1.0740.56
63_E95_V1.0610.55
12_L41_H1.0380.54
59_K134_E1.0150.52
87_M98_K1.0070.51
124_T127_L0.9910.50
143_G146_A0.9860.50
67_G71_P0.9740.49
15_G25_I0.9730.49
7_R153_E0.9720.49
117_K150_D0.9650.48
101_V123_M0.9420.47
23_A26_I0.9370.46
78_G81_K0.9350.46
8_T156_V0.9250.45
24_Y141_Y0.9230.45
17_Y93_K0.9200.45
31_A145_A0.9170.45
51_K137_D0.9150.45
12_L26_I0.9090.44
21_M48_A0.9030.44
78_G139_I0.8980.43
33_Y148_L0.8720.42
50_R67_G0.8720.42
125_M142_A0.8680.41
67_G160_I0.8660.41
74_A103_T0.8650.41
52_E113_E0.8630.41
13_F19_K0.8560.40
7_R150_D0.8470.40
33_Y150_D0.8430.40
130_L135_L0.8330.39
8_T26_I0.8330.39
127_L141_Y0.8320.39
92_I99_H0.8300.39
9_T157_N0.8140.38
44_W128_L0.8100.37
61_F66_F0.7990.37
11_V63_E0.7990.37
103_T106_Q0.7910.36
59_K66_F0.7850.36
63_E67_G0.7800.35
32_A143_G0.7790.35
38_T147_Y0.7770.35
93_K117_K0.7760.35
23_A85_A0.7720.35
17_Y89_P0.7660.34
26_I35_H0.7650.34
19_K44_W0.7650.34
17_Y21_M0.7610.34
82_M88_G0.7600.34
119_V151_A0.7580.34
6_K155_S0.7560.34
15_G33_Y0.7560.34
113_E137_D0.7540.34
92_I119_V0.7510.33
83_N89_P0.7510.33
29_G44_W0.7490.33
21_M107_L0.7480.33
23_A39_I0.7470.33
101_V127_L0.7360.32
100_N123_M0.7350.32
25_I126_D0.7330.32
31_A156_V0.7210.31
145_A149_A0.7210.31
21_M25_I0.7180.31
106_Q155_S0.7160.31
90_K153_E0.7010.30
95_V98_K0.6970.30
100_N122_T0.6930.30
109_E132_E0.6930.30
28_N31_A0.6910.30
61_F68_K0.6910.30
49_L130_L0.6790.29
17_Y103_T0.6760.29
119_V148_L0.6760.29
13_F88_G0.6710.28
24_Y157_N0.6650.28
7_R102_L0.6650.28
122_T126_D0.6630.28
11_V51_K0.6610.28
13_F22_A0.6580.28
17_Y34_D0.6570.28
66_F69_M0.6560.28
54_L160_I0.6560.28
106_Q151_A0.6470.27
8_T11_V0.6470.27
89_P108_I0.6450.27
131_Q139_I0.6390.27
93_K105_P0.6380.27
49_L140_D0.6360.26
9_T119_V0.6350.26
66_F71_P0.6350.26
102_L110_M0.6310.26
94_N116_V0.6280.26
17_Y101_V0.6280.26
108_I130_L0.6280.26
63_E116_V0.6250.26
16_D78_G0.6250.26
123_M143_G0.6230.26
103_T155_S0.6190.25
50_R130_L0.6120.25
46_F126_D0.6100.25
103_T107_L0.6070.25
50_R72_R0.6060.25
41_H77_M0.6040.25
97_K140_D0.5980.24
13_F18_D0.5970.24
15_G78_G0.5960.24
108_I122_T0.5930.24
104_L159_F0.5910.24
74_A115_G0.5900.24
16_D85_A0.5890.24
81_K87_M0.5870.24
26_I96_M0.5870.24
48_A118_L0.5860.24
87_M91_M0.5840.24
8_T106_Q0.5830.24
109_E112_Q0.5830.24
109_E114_Q0.5830.24
118_L160_I0.5820.23
118_L139_I0.5780.23
95_V131_Q0.5780.23
52_E72_R0.5770.23
11_V16_D0.5760.23
73_G130_L0.5740.23
122_T143_G0.5730.23
62_L91_M0.5710.23
26_I148_L0.5680.23
100_N130_L0.5630.22
46_F128_L0.5600.22
6_K98_K0.5560.22
38_T152_E0.5560.22
83_N127_L0.5550.22
64_K117_K0.5520.22
60_G68_K0.5510.22
31_A114_Q0.5500.22
112_Q140_D0.5500.22
22_A96_M0.5500.22
119_V146_A0.5470.22
152_E155_S0.5460.22
8_T152_E0.5450.22
84_F87_M0.5450.22
32_A145_A0.5440.22
50_R134_E0.5390.21
16_D19_K0.5390.21
56_P98_K0.5360.21
28_N107_L0.5350.21
8_T115_G0.5330.21
107_L124_T0.5330.21
49_L142_A0.5280.21
142_A146_A0.5250.21
74_A105_P0.5230.21
26_I160_I0.5230.21
63_E66_F0.5220.20
118_L126_D0.5210.20
22_A144_V0.5190.20
6_K118_L0.5170.20
110_M113_E0.5170.20
7_R35_H0.5160.20
41_H136_L0.5160.20
37_V44_W0.5160.20
130_L159_F0.5150.20
31_A111_A0.5120.20
63_E131_Q0.5100.20
97_K141_Y0.5100.20
39_I108_I0.5090.20
112_Q118_L0.5080.20
14_S21_M0.5080.20
82_M134_E0.5080.20
38_T117_K0.5010.20
46_F120_A0.5000.19
59_K80_S0.5000.19
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  
3pnxA 4 0.9938 100 0.318 Contact Map
2qs7A 3 0.85 100 0.469 Contact Map
3mc3A 3 0.6625 99.8 0.7 Contact Map
2hy5B 1 0.7125 99.5 0.76 Contact Map
1jx7A 5 0.7063 99.5 0.76 Contact Map
1l1sA 3 0.6562 99.5 0.771 Contact Map
2d1pB 1 0.7188 99.1 0.812 Contact Map
2pd2A 3 0.6375 98.9 0.824 Contact Map
2hy5A 2 0.7125 98.9 0.825 Contact Map
2d1pA 2 0.7188 98.5 0.844 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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