GREMLIN Database
RLUE - Ribosomal large subunit pseudouridine synthase E
UniProt: P75966 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13447
Length: 217 (194)
Sequences: 7453 (4742)
Seq/√Len: 340.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
5_I30_T3.3241.00
9_N25_S3.2801.00
142_E169_K3.1141.00
108_I198_A2.7941.00
44_F66_F2.7811.00
7_S28_R2.6111.00
121_A189_F2.4101.00
9_N24_F2.3931.00
106_G171_T2.3481.00
5_I29_S2.2921.00
123_E127_N2.2701.00
60_R80_R2.1511.00
83_E193_R2.1501.00
83_E195_I2.0881.00
112_Q167_W2.0851.00
13_K18_N2.0251.00
208_A211_E2.0251.00
42_I214_E1.9771.00
108_I169_K1.9551.00
110_Y169_K1.9471.00
73_Y95_Q1.9451.00
50_V66_F1.9391.00
130_T135_P1.9081.00
83_E209_N1.8291.00
106_G173_Y1.8211.00
40_R214_E1.7591.00
43_L202_Y1.7231.00
179_Q183_M1.7231.00
110_Y167_W1.7211.00
178_R181_R1.6851.00
108_I171_T1.6561.00
131_L134_G1.5861.00
21_V24_F1.5851.00
114_E190_P1.5831.00
123_E126_R1.5411.00
118_T121_A1.5381.00
54_F64_K1.5371.00
110_Y197_Y1.4911.00
198_A203_S1.4831.00
42_I212_W1.4771.00
121_A187_V1.4531.00
48_Y83_E1.4471.00
144_V169_K1.4461.00
43_L85_L1.4431.00
15_S18_N1.4261.00
98_L199_M1.4201.00
49_D80_R1.4111.00
97_R103_K1.3891.00
125_L187_V1.3841.00
26_S33_K1.3751.00
56_D60_R1.3731.00
112_Q193_R1.3731.00
106_G140_G1.3701.00
124_A187_V1.3671.00
122_L126_R1.3641.00
145_D167_W1.3531.00
54_F74_A1.3521.00
99_T199_M1.3481.00
131_L182_R1.3421.00
44_F67_I1.3171.00
39_T90_N1.3131.00
168_L184_T1.3111.00
7_S27_Q1.3061.00
52_P86_L1.2721.00
52_P74_A1.2571.00
114_E189_F1.2561.00
95_Q99_T1.2351.00
111_V168_L1.2301.00
137_L173_Y1.2131.00
41_V94_L1.2101.00
106_G198_A1.1911.00
14_T18_N1.1901.00
119_Q143_L1.1841.00
136_T139_A1.1751.00
119_Q123_E1.1571.00
125_L141_A1.1401.00
63_L86_L1.1361.00
81_D181_R1.1301.00
45_N208_A1.1231.00
130_T186_H1.1221.00
11_M18_N1.1161.00
117_P166_S1.1121.00
28_R33_K1.1111.00
185_A190_P1.1111.00
93_A97_R1.1021.00
41_V91_N1.1011.00
52_P64_K1.0971.00
48_Y193_R1.0951.00
8_E18_N1.0921.00
113_V189_F1.0731.00
169_K197_Y1.0531.00
85_L204_L1.0421.00
172_L179_Q1.0231.00
121_A124_A1.0231.00
141_A170_I1.0231.00
96_A100_Q1.0211.00
115_G189_F1.0181.00
110_Y144_V1.0181.00
31_R34_P1.0171.00
122_L141_A1.0161.00
143_L166_S1.0131.00
89_T95_Q1.0051.00
116_I146_E0.9941.00
43_L213_R0.9841.00
53_Q62_T0.9801.00
82_S181_R0.9801.00
53_Q60_R0.9721.00
64_K74_A0.9711.00
27_Q34_P0.9691.00
205_D213_R0.9691.00
117_P189_F0.9681.00
170_I184_T0.9571.00
125_L183_M0.9541.00
72_V88_L0.9491.00
115_G166_S0.9481.00
141_A168_L0.9481.00
126_R140_G0.9421.00
129_V187_V0.9361.00
105_T200_G0.9331.00
7_S31_R0.9161.00
39_T91_N0.9041.00
28_R31_R0.9031.00
117_P168_L0.9021.00
67_I88_L0.8941.00
117_P121_A0.8941.00
113_V166_S0.8931.00
96_A99_T0.8891.00
113_V168_L0.8881.00
29_S34_P0.8871.00
94_L98_L0.8841.00
6_I29_S0.8821.00
184_T191_T0.8801.00
131_L136_T0.8781.00
42_I67_I0.8771.00
40_R90_N0.8751.00
56_D62_T0.8731.00
129_V136_T0.8661.00
116_I166_S0.8651.00
82_S180_V0.8531.00
30_T34_P0.8501.00
43_L205_D0.8481.00
40_R72_V0.8441.00
125_L184_T0.8411.00
117_P122_L0.8381.00
140_G171_T0.8371.00
134_G176_R0.8321.00
142_E171_T0.8301.00
111_V191_T0.8261.00
45_N207_L0.8241.00
129_V186_H0.8231.00
139_A173_Y0.8221.00
171_T198_A0.8221.00
41_V215_V0.8211.00
27_Q31_R0.8201.00
82_S111_V0.8151.00
64_K88_L0.8131.00
62_T65_E0.8091.00
130_T134_G0.8051.00
44_F50_V0.8051.00
61_K65_E0.8031.00
51_L60_R0.8031.00
4_F14_T0.8021.00
113_V184_T0.8011.00
114_E192_L0.7911.00
182_R185_A0.7901.00
45_N209_N0.7901.00
133_D182_R0.7861.00
110_Y193_R0.7811.00
50_V61_K0.7771.00
117_P187_V0.7731.00
40_R70_Q0.7671.00
170_I180_V0.7611.00
25_S29_S0.7561.00
136_T179_Q0.7561.00
135_P176_R0.7551.00
167_W193_R0.7511.00
26_S29_S0.7501.00
138_P183_M0.7491.00
146_E166_S0.7430.99
174_E179_Q0.7390.99
207_L211_E0.7380.99
143_L168_L0.7370.99
45_N195_I0.7370.99
41_V90_N0.7320.99
51_L59_G0.7320.99
120_D124_A0.7310.99
63_L88_L0.7310.99
110_Y195_I0.7300.99
51_L56_D0.7260.99
104_R137_L0.7260.99
69_V212_W0.7210.99
20_Q27_Q0.7170.99
125_L129_V0.7130.99
75_A87_V0.7020.99
85_L199_M0.6990.99
27_Q30_T0.6930.99
127_N138_P0.6900.99
100_Q103_K0.6880.99
115_G190_P0.6850.99
167_W195_I0.6840.99
96_A102_G0.6770.99
54_F62_T0.6760.99
53_Q57_E0.6750.99
96_A103_K0.6750.99
141_A184_T0.6740.99
139_A179_Q0.6730.99
130_T136_T0.6710.99
119_Q126_R0.6660.99
139_A172_L0.6610.99
104_R173_Y0.6600.99
64_K67_I0.6470.99
25_S34_P0.6450.99
124_A186_H0.6440.99
27_Q32_R0.6390.98
118_T189_F0.6380.98
195_I209_N0.6380.98
213_R216_T0.6360.98
203_S206_N0.6350.98
108_I197_Y0.6320.98
41_V87_V0.6310.98
56_D80_R0.6260.98
184_T187_V0.6260.98
111_V180_V0.6250.98
177_N181_R0.6220.98
75_A95_Q0.6220.98
98_L105_T0.6210.98
37_Q70_Q0.6150.98
77_R175_G0.6140.98
136_T174_E0.6130.98
134_G182_R0.6130.98
117_P184_T0.6100.98
132_N182_R0.6090.98
37_Q214_E0.6080.98
42_I69_V0.6050.98
124_A127_N0.6020.98
112_Q192_L0.6020.98
45_N83_E0.5970.98
126_R138_P0.5970.98
48_Y209_N0.5950.98
8_E27_Q0.5940.98
71_G90_N0.5880.97
25_S32_R0.5860.97
107_K199_M0.5820.97
42_I88_L0.5800.97
8_E20_Q0.5800.97
82_S178_R0.5770.97
54_F63_L0.5770.97
48_Y81_D0.5760.97
76_G79_D0.5740.97
70_Q90_N0.5700.97
198_A201_D0.5690.97
107_K179_Q0.5690.97
49_D61_K0.5670.97
51_L80_R0.5660.97
29_S33_K0.5620.97
119_Q122_L0.5600.97
29_S32_R0.5590.97
74_A99_T0.5580.96
44_F212_W0.5570.96
98_L107_K0.5570.96
64_K68_P0.5540.96
87_V215_V0.5520.96
48_Y181_R0.5490.96
125_L168_L0.5480.96
10_T28_R0.5470.96
138_P141_A0.5470.96
143_L146_E0.5460.96
69_V72_V0.5450.96
67_I72_V0.5400.96
125_L170_I0.5400.96
75_A89_T0.5380.96
94_L199_M0.5370.96
124_A129_V0.5350.96
144_V167_W0.5340.96
116_I143_L0.5330.95
50_V64_K0.5320.95
42_I72_V0.5310.95
204_L207_L0.5290.95
92_G107_K0.5290.95
177_N185_A0.5260.95
38_P70_Q0.5250.95
77_R181_R0.5210.95
44_F88_L0.5160.95
184_T189_F0.5160.95
51_L57_E0.5140.94
24_F27_Q0.5130.94
122_L143_L0.5110.94
130_T133_D0.5080.94
40_R69_V0.5070.94
175_G194_L0.5010.94
183_M187_V0.5000.94
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  
3dh3A 1 0.8986 100 0.349 Contact Map
2gmlA 1 0.7373 100 0.383 Contact Map
4lgtA 1 0.9217 100 0.386 Contact Map
1vioA 2 0.894 100 0.39 Contact Map
1kskA 1 0.9032 100 0.409 Contact Map
2omlA 1 0.8341 100 0.44 Contact Map
2olwA 1 0.8295 100 0.45 Contact Map
1v9fA 1 0.7742 100 0.562 Contact Map
2i82A 1 0.8387 99.9 0.623 Contact Map
1v9kA 1 0.7696 99.9 0.64 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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