GREMLIN Database
YLME - UPF0001 protein YlmE
UniProt: O31727 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 230 (218)
Sequences: 4678 (3309)
Seq/√Len: 224.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
52_C73_E3.4951.00
116_R151_L3.3161.00
108_E149_H2.8001.00
169_R209_E2.7891.00
13_R204_E2.7781.00
37_V41_R2.5851.00
79_S130_H2.5501.00
82_S102_S2.5121.00
176_R180_D2.4721.00
132_M140_F2.3611.00
18_C28_V2.3221.00
116_R153_A2.2371.00
43_Q47_D2.1571.00
105_K143_E2.0941.00
61_L92_V2.0761.00
173_R209_E2.0721.00
101_L143_E2.0291.00
14_I30_V1.9411.00
20_R208_E1.9271.00
194_E212_T1.8991.00
33_V77_I1.8721.00
31_I213_Y1.8511.00
106_E110_R1.8441.00
106_E109_K1.8301.00
169_R208_E1.8271.00
13_R203_F1.8071.00
51_T71_N1.6971.00
98_L107_I1.6901.00
46_V51_T1.6651.00
46_V72_P1.6641.00
14_I207_I1.6561.00
11_N25_S1.6541.00
155_L195_L1.6281.00
43_Q70_G1.6281.00
18_C26_D1.6261.00
101_L105_K1.6221.00
29_T194_E1.6091.00
29_T52_C1.6011.00
34_T53_L1.5981.00
179_R183_Q1.5971.00
38_S41_R1.5961.00
108_E148_E1.5891.00
94_Y118_F1.5861.00
216_I219_S1.5791.00
12_E16_E1.5641.00
200_S219_S1.5491.00
153_A193_T1.5491.00
108_E147_F1.5291.00
112_E149_H1.5131.00
96_H213_Y1.5121.00
114_T151_L1.5071.00
111_A115_V1.4931.00
138_I181_Q1.4451.00
110_R113_G1.4451.00
123_T175_L1.4231.00
118_F194_E1.3981.00
80_L88_V1.3921.00
24_S27_E1.3901.00
157_T175_L1.3891.00
32_A50_I1.3761.00
98_L117_C1.3361.00
164_D167_Q1.3361.00
143_E146_G1.3351.00
104_A147_F1.3251.00
134_K178_L1.3231.00
119_V140_F1.3221.00
176_R209_E1.3101.00
104_A144_L1.2931.00
58_D76_F1.2731.00
121_V137_V1.2721.00
125_L133_K1.2711.00
136_E139_P1.2691.00
119_V141_I1.2651.00
73_E93_S1.2391.00
194_E213_Y1.2361.00
123_T171_C1.2321.00
139_P142_Q1.2291.00
7_L11_N1.2161.00
46_V53_L1.2141.00
85_A103_L1.2021.00
63_R67_L1.1981.00
176_R179_R1.1851.00
16_E19_N1.1821.00
89_V115_V1.1801.00
15_N19_N1.1781.00
31_I52_C1.1731.00
41_R44_E1.1691.00
10_I216_I1.1691.00
141_I152_V1.1631.00
125_L135_E1.1581.00
46_V71_N1.1441.00
174_S177_E1.1391.00
82_S100_R1.1381.00
134_K174_S1.1361.00
65_Q91_S1.1301.00
39_P67_L1.1181.00
160_P171_C1.1081.00
108_E112_E1.1071.00
8_R12_E1.1001.00
45_A48_A1.0981.00
43_Q68_M1.0971.00
59_A83_R1.0941.00
76_F88_V1.0801.00
20_R204_E1.0691.00
58_D80_L1.0591.00
65_Q92_V1.0411.00
32_A220_L1.0401.00
28_V207_I1.0291.00
155_L182_V1.0291.00
100_R103_L1.0261.00
201_N218_S1.0251.00
18_C25_S1.0191.00
141_I182_V1.0191.00
132_M137_V1.0161.00
18_C24_S1.0111.00
31_I96_H1.0091.00
62_L87_S1.0081.00
105_K147_F1.0061.00
58_D62_L1.0031.00
173_R177_E1.0011.00
189_N192_C0.9971.00
118_F153_A0.9951.00
61_L65_Q0.9871.00
45_A220_L0.9811.00
118_F213_Y0.9791.00
7_L50_I0.9681.00
119_V132_M0.9621.00
175_L179_R0.9601.00
42_A53_L0.9541.00
133_K136_E0.9471.00
138_I142_Q0.9471.00
155_L178_L0.9461.00
105_K109_K0.9461.00
177_E181_Q0.9441.00
17_A21_S0.9421.00
93_S116_R0.9401.00
18_C27_E0.9361.00
95_I107_I0.9361.00
88_V92_V0.9341.00
162_T167_Q0.9321.00
29_T213_Y0.9321.00
82_S106_E0.9321.00
165_Q205_I0.9281.00
169_R205_I0.9251.00
121_V178_L0.9231.00
82_S103_L0.9231.00
168_I205_I0.9180.99
39_P68_M0.9060.99
95_I98_L0.9030.99
12_E15_N0.8980.99
28_V214_I0.8930.99
79_S99_D0.8920.99
7_L45_A0.8890.99
11_N15_N0.8870.99
62_L91_S0.8850.99
9_H13_R0.8820.99
104_A150_I0.8790.99
170_S174_S0.8740.99
36_Y57_R0.8570.99
144_L152_V0.8460.99
16_E20_R0.8440.99
36_Y56_N0.8440.99
94_Y213_Y0.8400.99
162_T168_I0.8360.99
85_A106_E0.8320.99
66_E91_S0.8280.99
122_N125_L0.8240.99
94_Y116_R0.8240.99
37_V223_N0.8230.99
18_C23_R0.8170.99
165_Q168_I0.8160.99
99_D103_L0.8120.99
123_T157_T0.8080.99
98_L140_F0.8070.99
15_N18_C0.8050.99
137_V178_L0.8050.99
68_M72_P0.8000.99
138_I182_V0.7970.99
137_V155_L0.7970.99
94_Y153_A0.7940.99
85_A107_I0.7920.99
58_D88_V0.7870.98
205_I209_E0.7820.98
31_I211_A0.7820.98
30_V216_I0.7810.98
124_S171_C0.7800.98
182_V192_C0.7770.98
205_I208_E0.7770.98
23_R27_E0.7690.98
105_K146_G0.7660.98
57_R97_S0.7660.98
39_P42_A0.7630.98
29_T73_E0.7620.98
98_L103_L0.7620.98
180_D183_Q0.7600.98
151_L191_P0.7580.98
34_T221_V0.7550.98
88_V91_S0.7530.98
117_C150_I0.7530.98
75_H94_Y0.7520.98
126_E129_K0.7520.98
19_N25_S0.7520.98
86_K110_R0.7490.98
120_Q158_M0.7410.98
181_Q184_K0.7380.98
80_L103_L0.7350.98
124_S160_P0.7350.98
58_D87_S0.7320.98
85_A89_V0.7290.97
137_V182_V0.7240.97
76_F80_L0.7230.97
207_I214_I0.7200.97
79_S100_R0.7170.97
172_F197_M0.7120.97
111_A114_T0.7120.97
15_N25_S0.7060.97
45_A221_V0.7040.97
43_Q67_L0.6990.97
183_Q193_T0.6940.97
101_L147_F0.6900.96
34_T50_I0.6860.96
42_A68_M0.6840.96
203_F207_I0.6820.96
139_P143_E0.6820.96
5_D8_R0.6800.96
165_Q170_S0.6790.96
153_A194_E0.6680.96
157_T197_M0.6600.95
95_I115_V0.6590.95
52_C96_H0.6530.95
109_K113_G0.6500.95
23_R26_D0.6500.95
123_T174_S0.6490.95
36_Y225_T0.6480.95
46_V68_M0.6450.95
90_N115_V0.6440.95
58_D61_L0.6430.95
44_E47_D0.6430.95
54_G77_I0.6430.95
143_E147_F0.6400.95
50_I53_L0.6380.95
130_H158_M0.6380.95
36_Y60_E0.6370.94
9_H12_E0.6310.94
43_Q69_K0.6310.94
183_Q192_C0.6280.94
53_L72_P0.6270.94
61_L88_V0.6250.94
94_Y194_E0.6240.94
6_N9_H0.6240.94
141_I192_C0.6220.94
60_E224_E0.6200.94
85_A110_R0.6200.94
142_Q145_S0.6190.94
14_I28_V0.6190.94
45_A50_I0.6170.93
124_S159_A0.6160.93
179_R192_C0.6070.93
124_S157_T0.6060.93
39_P64_K0.6050.93
13_R219_S0.6010.93
98_L104_A0.6000.93
87_S90_N0.5950.92
169_R173_R0.5940.92
55_E64_K0.5890.92
25_S28_V0.5880.92
34_T64_K0.5860.92
75_H96_H0.5860.92
142_Q188_P0.5840.92
7_L220_L0.5820.91
39_P43_Q0.5770.91
161_L201_N0.5750.91
17_A204_E0.5750.91
112_E148_E0.5750.91
80_L95_I0.5720.91
40_E67_L0.5670.90
65_Q69_K0.5670.90
60_E64_K0.5660.90
8_R11_N0.5660.90
158_M199_M0.5620.90
40_E43_Q0.5610.90
125_L134_K0.5610.90
23_R28_V0.5600.90
145_S189_N0.5590.90
180_D184_K0.5590.90
138_I178_L0.5590.90
119_V137_V0.5570.90
121_V175_L0.5570.90
83_R87_S0.5560.89
65_Q74_W0.5550.89
10_I17_A0.5530.89
102_S105_K0.5500.89
57_R158_M0.5500.89
36_Y42_A0.5490.89
132_M136_E0.5490.89
21_S24_S0.5490.89
134_K138_I0.5470.89
58_D92_V0.5460.89
159_A171_C0.5440.88
121_V132_M0.5430.88
107_I150_I0.5430.88
177_E180_D0.5380.88
37_V218_S0.5360.88
32_A221_V0.5340.87
101_L140_F0.5330.87
123_T134_K0.5330.87
98_L119_V0.5320.87
53_L74_W0.5290.87
17_A207_I0.5280.87
179_R212_T0.5280.87
138_I141_I0.5280.87
10_I219_S0.5260.87
13_R17_A0.5230.86
10_I203_F0.5180.86
5_D9_H0.5180.86
101_L139_P0.5170.86
166_D170_S0.5160.86
168_I171_C0.5130.85
203_F219_S0.5110.85
218_S222_G0.5060.85
183_Q188_P0.5040.84
34_T57_R0.5030.84
17_A20_R0.5030.84
16_E204_E0.5020.84
117_C153_A0.5010.84
34_T74_W0.5010.84
164_D169_R0.5000.84
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  
3cpgA 1 0.9609 100 0.52 Contact Map
1ct5A 1 0.8826 100 0.522 Contact Map
3sy1A 1 0.9565 100 0.525 Contact Map
3r79A 2 0.9478 100 0.537 Contact Map
1bd0A 2 0.9391 100 0.639 Contact Map
3e5pA 2 0.9435 100 0.64 Contact Map
4bhyA 2 0.8522 100 0.641 Contact Map
4beuA 2 0.9609 100 0.641 Contact Map
4a3qA 2 0.9 100 0.642 Contact Map
3kw3A 2 0.9261 100 0.644 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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