GREMLIN Database
YKOJ - Uncharacterized protein YkoJ
UniProt: O35012 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 170 (156)
Sequences: 534 (480)
Seq/√Len: 38.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
57_G77_I4.4391.00
109_I114_A3.5771.00
137_A157_S3.1311.00
157_S160_D3.0711.00
124_G144_I3.0071.00
114_A118_A2.8321.00
119_L144_I2.8141.00
51_A77_I2.7131.00
115_E126_V2.3901.00
113_E116_E2.3061.00
154_F166_Q2.2610.99
73_Y140_Y2.2530.99
51_A57_G2.2390.99
13_G16_A2.1530.99
47_A88_V2.1020.99
89_D96_L2.1000.99
157_S164_I2.0950.99
89_D92_T2.0900.99
124_G154_F2.0860.99
152_T166_Q2.0390.99
109_I117_I2.0210.99
20_F23_N1.9080.98
43_T46_E1.8680.98
117_I156_I1.8600.98
118_A156_I1.7890.97
17_A20_F1.6760.96
111_K129_S1.6640.96
42_L50_I1.6320.95
122_T154_F1.6160.95
126_V144_I1.5700.94
52_K77_I1.5600.94
109_I161_G1.5580.94
110_T113_E1.5130.93
42_L47_A1.5090.93
118_A142_M1.5070.93
121_Q166_Q1.4780.92
74_E93_K1.4640.92
121_Q154_F1.4470.91
51_A59_V1.4400.91
131_L138_Y1.4090.90
129_S142_M1.3740.89
6_W21_S1.3690.89
59_V68_N1.3640.89
89_D157_S1.3620.89
47_A155_E1.3080.87
82_E100_L1.3030.86
8_V14_C1.2740.85
12_A25_F1.2620.85
122_T144_I1.2490.84
65_D68_N1.2430.84
50_I88_V1.2380.83
73_Y95_A1.2370.83
50_I96_L1.2210.83
49_A165_K1.2200.82
13_G20_F1.2190.82
154_F163_I1.2110.82
139_I155_E1.2110.82
18_G21_S1.1980.81
46_E120_K1.1720.80
79_K82_E1.1620.79
51_A55_V1.1620.79
142_M154_F1.1610.79
142_M156_I1.0850.74
47_A86_V1.0830.74
40_D129_S1.0500.72
119_L123_G1.0430.71
109_I113_E1.0090.69
121_Q156_I1.0080.69
5_K116_E0.9920.67
38_K130_K0.9840.67
10_L23_N0.9790.66
47_A51_A0.9630.65
40_D71_E0.9620.65
12_A15_L0.9490.64
152_T168_I0.9330.63
153_E161_G0.9300.62
73_Y84_Y0.9230.62
147_K150_T0.9120.61
141_E155_E0.9020.60
51_A75_V0.8990.60
137_A156_I0.8990.60
65_D74_E0.8990.60
71_E129_S0.8980.60
85_D135_D0.8940.59
5_K10_L0.8930.59
55_V86_V0.8850.59
117_I161_G0.8780.58
126_V142_M0.8770.58
16_A137_A0.8720.57
41_A91_H0.8700.57
115_E129_S0.8660.57
47_A65_D0.8660.57
128_E142_M0.8560.56
77_I86_V0.8550.56
122_T152_T0.8510.56
5_K8_V0.8450.55
133_E138_Y0.8430.55
42_L90_I0.8430.55
64_R89_D0.8420.55
14_C127_T0.8410.55
108_A160_D0.8390.54
45_Q91_H0.8300.54
10_L15_L0.8290.54
13_G23_N0.8240.53
8_V18_G0.8190.53
135_D155_E0.8180.53
11_L14_C0.8090.52
58_T72_V0.8080.52
13_G103_K0.8070.52
94_Q121_Q0.8050.51
48_E52_K0.8040.51
62_I112_E0.8040.51
137_A162_R0.8040.51
114_A169_D0.8000.51
119_L126_V0.7990.51
10_L121_Q0.7950.51
127_T132_D0.7930.50
116_E120_K0.7920.50
109_I156_I0.7920.50
59_V77_I0.7870.50
81_G87_Y0.7810.49
144_I154_F0.7810.49
115_E119_L0.7740.49
126_V140_Y0.7680.48
39_T136_G0.7680.48
47_A75_V0.7620.48
113_E162_R0.7610.47
108_A159_K0.7560.47
81_G148_Q0.7540.47
143_E151_E0.7510.47
37_S110_T0.7500.46
42_L88_V0.7490.46
67_Y87_Y0.7480.46
49_A53_T0.7480.46
66_L128_E0.7400.46
43_T125_T0.7400.46
42_L46_E0.7380.45
9_G15_L0.7340.45
52_K57_G0.7320.45
51_A114_A0.7300.45
67_Y74_E0.7210.44
37_S155_E0.7180.44
46_E63_D0.7170.44
5_K23_N0.7160.43
139_I164_I0.7140.43
132_D141_E0.7060.43
20_F27_T0.7010.42
45_Q49_A0.6970.42
134_D139_I0.6930.41
41_A64_R0.6930.41
88_V167_E0.6900.41
19_G22_Y0.6880.41
47_A134_D0.6830.41
121_Q163_I0.6820.40
153_E167_E0.6810.40
42_L53_T0.6800.40
146_T150_T0.6650.39
49_A91_H0.6630.39
53_T108_A0.6580.38
113_E161_G0.6530.38
153_E160_D0.6520.38
98_D161_G0.6480.38
47_A60_E0.6450.37
134_D141_E0.6400.37
126_V154_F0.6280.36
44_E117_I0.6270.36
141_E168_I0.6250.36
39_T113_E0.6190.35
8_V119_L0.6190.35
11_L39_T0.6190.35
18_G23_N0.6170.35
11_L26_A0.6160.35
47_A73_Y0.6150.35
10_L24_A0.6130.35
70_K160_D0.6130.35
6_W17_A0.6110.35
41_A53_T0.6110.35
76_E120_K0.6110.35
79_K84_Y0.6090.34
86_V95_A0.6050.34
18_G169_D0.6050.34
9_G20_F0.6030.34
115_E140_Y0.6020.34
136_G153_E0.6020.34
118_A154_F0.5970.33
133_E152_T0.5950.33
6_W26_A0.5950.33
47_A132_D0.5930.33
16_A19_G0.5930.33
11_L16_A0.5910.33
51_A82_E0.5860.32
75_V83_D0.5830.32
16_A160_D0.5780.32
64_R90_I0.5780.32
75_V131_L0.5740.32
54_V82_E0.5710.31
144_I166_Q0.5690.31
108_A133_E0.5690.31
42_L93_K0.5660.31
24_A45_Q0.5650.31
135_D139_I0.5630.31
20_F24_A0.5620.31
21_S25_F0.5610.31
62_I107_V0.5590.30
155_E165_K0.5580.30
9_G12_A0.5550.30
144_I152_T0.5520.30
111_K130_K0.5510.30
112_E115_E0.5500.30
117_I120_K0.5500.30
57_G71_E0.5480.30
22_Y117_I0.5470.30
40_D77_I0.5450.29
49_A160_D0.5440.29
53_T80_E0.5420.29
13_G49_A0.5390.29
9_G26_A0.5350.29
78_E113_E0.5340.29
61_D139_I0.5280.28
123_G148_Q0.5280.28
59_V115_E0.5270.28
21_S49_A0.5250.28
78_E103_K0.5220.28
11_L100_L0.5220.28
13_G21_S0.5180.27
60_E65_D0.5140.27
90_I93_K0.5120.27
8_V13_G0.5110.27
5_K11_L0.5050.26
66_L160_D0.5050.26
75_V87_Y0.5030.26
61_D122_T0.5020.26
47_A95_A0.5000.26
24_A48_E0.5000.26
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  
4exrA 2 0.8059 99.9 0.405 Contact Map
2kgyA 1 0.5118 99.1 0.683 Contact Map
4ipbA 1 0.7118 98.5 0.744 Contact Map
4fr9A 1 0.6882 98.4 0.752 Contact Map
2gu3A 1 0.7294 97.9 0.787 Contact Map
4k90B 1 0.8765 97.2 0.814 Contact Map
4k61A 1 0.7235 97.1 0.815 Contact Map
3nqzA 1 0.7882 96.4 0.83 Contact Map
3u1wA 3 0.7176 96 0.837 Contact Map
4dsdA 1 0.7059 96 0.838 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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