GREMLIN Database
YBER - Uncharacterized protein YbeR
UniProt: P77627 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13648
Length: 235 (201)
Sequences: 386 (306)
Seq/√Len: 21.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
155_Y164_G6.6111.00
53_L129_G6.5681.00
49_D52_D6.1731.00
50_R139_E5.2351.00
151_A161_Y3.1871.00
136_S139_E3.0621.00
117_W172_W2.9690.99
50_R54_L2.9580.99
46_G52_D2.6800.99
14_T203_L2.6670.99
162_F211_Y2.4910.98
48_D52_D2.3620.97
118_D121_R2.3020.96
59_R64_G2.2940.96
65_H172_W2.2770.96
64_G118_D2.2730.96
80_S83_E2.2550.96
45_W60_M2.1230.94
16_M20_N2.0430.93
123_G144_Q2.0350.93
137_E141_L2.0220.93
121_R169_R1.9930.92
117_W121_R1.9760.92
48_D156_S1.9730.92
140_S216_W1.9450.91
47_I121_R1.8590.89
53_L125_L1.7980.88
12_L151_A1.7350.86
121_R172_W1.7320.86
8_I152_L1.7320.86
116_A155_Y1.6690.83
57_I143_I1.6260.82
60_M121_R1.6140.81
45_W121_R1.6000.81
24_L129_G1.5660.79
125_L129_G1.5440.78
120_V169_R1.5290.77
126_S147_I1.5020.76
8_I148_H1.4800.75
127_R169_R1.4740.75
157_N216_W1.4420.73
60_M117_W1.4240.72
124_F128_M1.4230.72
43_S130_V1.4210.72
61_I147_I1.3910.70
55_R96_Q1.3840.70
119_Y151_A1.3800.70
44_S121_R1.3580.68
114_I171_Y1.3490.68
6_Q141_L1.3480.68
59_R65_H1.3470.68
158_W210_Y1.3260.66
149_L152_L1.2820.64
62_D214_L1.2650.63
65_H117_W1.2640.63
53_L134_W1.2350.61
120_V165_Y1.2290.60
47_I79_Y1.2270.60
43_S160_Q1.2230.60
11_A14_T1.2130.59
107_E156_S1.2110.59
80_S84_W1.1930.58
147_I216_W1.1870.58
56_T59_R1.1760.57
45_W172_W1.1290.54
39_F51_D1.1220.53
73_Y161_Y1.1180.53
206_S210_Y1.1070.52
35_G180_L1.1060.52
10_F169_R1.0830.51
59_R63_N1.0750.50
63_N119_Y1.0750.50
209_A212_P1.0740.50
127_R141_L1.0720.50
119_Y133_N1.0650.50
53_L135_L1.0610.49
102_V151_A1.0560.49
141_L144_Q1.0400.48
138_E142_W1.0390.48
49_D134_W1.0380.48
123_G214_L1.0360.48
15_P129_G1.0200.47
42_S48_D1.0030.45
96_Q136_S0.9990.45
8_I113_G0.9960.45
10_F211_Y0.9880.44
109_C165_Y0.9830.44
60_M169_R0.9780.44
57_I135_L0.9730.43
134_W201_Y0.9720.43
20_N216_W0.9690.43
7_K10_F0.9630.43
142_W145_S0.9550.42
15_P120_V0.9540.42
154_Y165_Y0.9520.42
46_G121_R0.9490.42
14_T199_M0.9420.41
35_G142_W0.9420.41
151_A164_G0.9300.41
160_Q207_D0.9250.40
101_F105_T0.9240.40
213_T216_W0.9150.40
43_S198_D0.9100.39
133_N160_Q0.9090.39
45_W65_H0.9070.39
86_D90_E0.8980.39
120_V127_R0.8940.38
83_E88_L0.8930.38
169_R196_G0.8880.38
122_M175_P0.8850.38
92_N95_G0.8800.37
125_L172_W0.8740.37
58_H125_L0.8740.37
162_F200_F0.8740.37
10_F127_R0.8650.36
27_H157_N0.8610.36
64_G117_W0.8610.36
48_D214_L0.8590.36
119_Y150_R0.8570.36
91_L215_S0.8560.36
18_I66_A0.8520.36
8_I16_M0.8510.36
85_R89_A0.8450.35
35_G139_E0.8440.35
20_N175_P0.8430.35
117_W169_R0.8430.35
61_I122_M0.8380.35
44_S47_I0.8330.34
127_R144_Q0.8320.34
48_D205_A0.8300.34
49_D119_Y0.8260.34
110_G162_F0.8250.34
20_N117_W0.8250.34
41_L132_N0.8250.34
50_R97_A0.8240.34
32_M38_F0.8190.34
130_V135_L0.8100.33
120_V161_Y0.8100.33
60_M122_M0.8080.33
84_W91_L0.7910.32
152_L214_L0.7810.31
211_Y215_S0.7770.31
11_A24_L0.7750.31
129_G171_Y0.7730.31
65_H125_L0.7660.31
165_Y172_W0.7640.30
38_F206_S0.7620.30
8_I216_W0.7580.30
12_L53_L0.7580.30
113_G164_G0.7570.30
130_V164_G0.7530.30
17_E76_W0.7450.29
135_L138_E0.7430.29
144_Q211_Y0.7400.29
57_I126_S0.7390.29
9_L13_S0.7360.29
172_W216_W0.7340.29
11_A164_G0.7320.29
63_N115_K0.7310.29
113_G124_F0.7280.28
9_L123_G0.7270.28
120_V151_A0.7260.28
40_D165_Y0.7260.28
22_C124_F0.7250.28
10_F60_M0.7250.28
105_T165_Y0.7240.28
116_A164_G0.7240.28
6_Q144_Q0.7190.28
66_A76_W0.7190.28
58_H160_Q0.7180.28
9_L161_Y0.7180.28
46_G181_P0.7180.28
198_D204_F0.7150.28
27_H94_Q0.7100.27
171_Y179_H0.7060.27
127_R167_F0.7060.27
48_D51_D0.7050.27
44_S117_W0.7040.27
41_L168_G0.7040.27
70_A113_G0.7030.27
143_I215_S0.7030.27
11_A203_L0.7030.27
125_L170_Q0.7020.27
114_I215_S0.7010.27
110_G168_G0.6960.27
121_R127_R0.6950.27
17_E22_C0.6910.26
106_A122_M0.6870.26
43_S62_D0.6770.26
159_R212_P0.6750.26
65_H121_R0.6750.26
174_S200_F0.6720.25
51_D80_S0.6670.25
66_A115_K0.6660.25
13_S17_E0.6640.25
68_R140_S0.6630.25
136_S160_Q0.6620.25
86_D202_Q0.6610.25
86_D206_S0.6590.25
10_F13_S0.6550.25
56_T121_R0.6530.24
100_Q104_S0.6470.24
73_Y109_C0.6470.24
13_S127_R0.6460.24
51_D147_I0.6450.24
122_M126_S0.6440.24
137_E143_I0.6430.24
89_A93_E0.6430.24
7_K11_A0.6410.24
120_V144_Q0.6390.24
100_Q125_L0.6380.24
84_W159_R0.6350.24
197_N201_Y0.6320.23
22_C117_W0.6300.23
69_L173_Q0.6260.23
36_T216_W0.6180.23
21_E100_Q0.6180.23
50_R117_W0.6170.23
58_H146_R0.6170.23
149_L156_S0.6150.23
79_Y83_E0.6150.23
87_Y159_R0.6120.22
42_S46_G0.6090.22
49_D87_Y0.6090.22
44_S134_W0.6070.22
42_S197_N0.6070.22
10_F133_N0.6030.22
157_N172_W0.6020.22
82_C107_E0.6000.22
9_L133_N0.5990.22
8_I15_P0.5970.22
54_L58_H0.5950.22
27_H160_Q0.5940.22
41_L108_C0.5930.22
80_S90_E0.5920.22
62_D122_M0.5910.21
103_A208_D0.5890.21
12_L135_L0.5890.21
13_S203_L0.5880.21
201_Y204_F0.5880.21
8_I214_L0.5840.21
12_L161_Y0.5810.21
9_L12_L0.5770.21
137_E142_W0.5770.21
94_Q123_G0.5710.21
39_F62_D0.5710.21
106_A110_G0.5710.21
92_N97_A0.5700.21
66_A150_R0.5700.21
66_A69_L0.5690.21
42_S119_Y0.5630.20
40_D172_W0.5620.20
17_E56_T0.5620.20
15_P66_A0.5600.20
138_E165_Y0.5600.20
47_I52_D0.5600.20
115_K119_Y0.5590.20
25_P122_M0.5540.20
46_G177_D0.5540.20
110_G161_Y0.5530.20
180_L194_D0.5490.20
39_F43_S0.5470.20
15_P125_L0.5450.19
89_A107_E0.5420.19
38_F134_W0.5400.19
55_R138_E0.5390.19
72_F203_L0.5360.19
40_D60_M0.5340.19
117_W168_G0.5330.19
203_L209_A0.5330.19
18_I69_L0.5320.19
165_Y216_W0.5320.19
121_R139_E0.5280.19
35_G103_A0.5240.19
56_T63_N0.5230.19
17_E23_C0.5230.19
66_A118_D0.5220.19
67_A97_A0.5220.19
55_R90_E0.5220.19
25_P141_L0.5220.19
53_L126_S0.5200.18
136_S140_S0.5190.18
82_C156_S0.5190.18
163_A197_N0.5180.18
36_T153_R0.5170.18
63_N150_R0.5160.18
163_A203_L0.5110.18
14_T24_L0.5100.18
43_S204_F0.5100.18
104_S171_Y0.5100.18
60_M118_D0.5100.18
52_D199_M0.5090.18
59_R136_S0.5090.18
23_C149_L0.5080.18
91_L96_Q0.5080.18
86_D103_A0.5070.18
60_M158_W0.5070.18
113_G168_G0.5070.18
167_F200_F0.5060.18
22_C175_P0.5040.18
56_T136_S0.5010.18
45_W215_S0.5000.18
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  
3q4oA 2 0.6085 20.3 0.95 Contact Map
4ghuB 1 0.0596 5.6 0.961 Contact Map
2fkiA 1 0.2553 4.5 0.963 Contact Map
4g78A 1 0.5532 4.2 0.964 Contact Map
2jobA 1 0.3489 4.2 0.964 Contact Map
3us6A 1 0.6 4 0.964 Contact Map
1acfA 1 0.2 4 0.964 Contact Map
2ekkA 1 0.2 3.9 0.964 Contact Map
1rwhA 1 0.3404 3.8 0.964 Contact Map
2g3qA 1 0.183 3.8 0.964 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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