GREMLIN Database
RLUB - Ribosomal large subunit pseudouridine synthase B
UniProt: P37765 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12433
Length: 291 (231)
Sequences: 9068 (6079)
Seq/√Len: 399.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
32_D48_L5.0301.00
28_R53_D3.8611.00
30_S51_R3.7751.00
173_K185_N3.4481.00
139_E185_N3.3621.00
36_A40_D2.8541.00
72_Y94_R2.5001.00
139_E214_R2.4151.00
141_A183_W2.3331.00
8_V42_V2.3181.00
15_G20_I2.2801.00
143_R183_W2.2581.00
137_E187_T2.2001.00
141_A185_N2.1861.00
22_S26_A2.1601.00
114_C209_R2.1391.00
152_K205_V2.0081.00
19_E22_S1.9801.00
154_R158_R1.9781.00
114_C211_I1.9681.00
78_E94_R1.9611.00
225_P228_G1.9451.00
23_I52_I1.9441.00
175_S185_N1.9381.00
139_E187_T1.9281.00
171_T189_T1.8531.00
30_S35_I1.8521.00
195_E199_L1.8491.00
9_L20_I1.8351.00
234_L238_N1.8111.00
104_I126_A1.7891.00
230_T236_Q1.7791.00
49_K56_L1.7781.00
70_L231_E1.7701.00
6_Q21_E1.7641.00
3_E11_R1.7551.00
194_R197_R1.7341.00
31_V40_D1.7131.00
114_C226_R1.7071.00
88_R111_V1.6931.00
76_E114_C1.6591.00
91_V117_L1.6521.00
154_R157_S1.6381.00
68_R122_D1.6371.00
186_V200_W1.6101.00
145_F206_Q1.6031.00
184_Y200_W1.6021.00
51_R56_L1.5281.00
142_V184_Y1.5101.00
82_R92_F1.5001.00
167_A170_K1.4891.00
37_K40_D1.4841.00
71_A218_I1.4811.00
148_V182_Q1.4751.00
137_E189_T1.4741.00
3_E41_R1.4661.00
80_C117_L1.4501.00
8_V12_A1.3841.00
143_R209_R1.3661.00
149_D152_K1.3641.00
3_E8_V1.3601.00
137_E214_R1.3581.00
214_R219_P1.3561.00
162_L198_R1.3521.00
126_A130_M1.3471.00
176_G183_W1.3001.00
161_Q166_P1.2861.00
70_L229_W1.2831.00
71_A116_L1.2721.00
68_R231_E1.2611.00
144_V200_W1.2511.00
146_G182_Q1.2461.00
82_R105_A1.2451.00
5_L36_A1.2321.00
29_V52_I1.2181.00
217_D239_Y1.2121.00
141_A213_V1.1971.00
201_E206_Q1.1961.00
80_C105_A1.1881.00
146_G205_V1.1861.00
69_V125_L1.1701.00
144_V205_V1.1691.00
155_D203_V1.1611.00
25_E38_L1.1511.00
147_Q182_Q1.1391.00
124_E128_R1.1381.00
92_F105_A1.1351.00
144_V184_Y1.1341.00
76_E209_R1.1301.00
72_Y95_L1.1281.00
31_V50_I1.1261.00
165_G192_R1.1261.00
150_D174_F1.1231.00
153_L157_S1.1141.00
145_F205_V1.1141.00
174_F182_Q1.1131.00
171_T187_T1.1121.00
33_G51_R1.1101.00
77_G111_V1.1031.00
22_S25_E1.0951.00
128_R134_R1.0931.00
24_I29_V1.0861.00
15_G23_I1.0851.00
112_N197_R1.0831.00
21_E25_E1.0781.00
109_L117_L1.0701.00
233_D236_Q1.0691.00
45_T48_L1.0691.00
8_V50_I1.0681.00
130_M215_Y1.0681.00
9_L15_G1.0631.00
169_F172_I1.0541.00
129_L215_Y1.0461.00
30_S54_G1.0431.00
9_L57_I1.0301.00
42_V50_I1.0131.00
141_A175_S1.0131.00
144_V182_Q1.0061.00
81_T90_T1.0011.00
142_V186_V0.9971.00
152_K203_V0.9931.00
95_L119_F0.9911.00
113_T142_V0.9891.00
188_L195_E0.9851.00
4_K41_R0.9851.00
122_D125_L0.9841.00
23_I28_R0.9801.00
127_N131_H0.9761.00
137_E171_T0.9731.00
103_W119_F0.9691.00
185_N213_V0.9681.00
125_L129_L0.9641.00
168_A189_T0.9551.00
161_Q202_A0.9521.00
156_L203_V0.9451.00
80_C92_F0.9411.00
142_V207_V0.9391.00
113_T197_R0.9281.00
156_L159_G0.9241.00
3_E7_K0.9211.00
186_V196_V0.9211.00
155_D158_R0.9101.00
92_F119_F0.9041.00
170_K188_L0.9001.00
90_T93_D0.9001.00
148_V205_V0.8981.00
34_K40_D0.8971.00
27_G35_I0.8931.00
79_L86_E0.8921.00
132_P135_E0.8911.00
162_L165_G0.8881.00
120_T126_A0.8851.00
113_T196_V0.8841.00
148_V184_Y0.8781.00
147_Q177_G0.8761.00
143_R181_N0.8711.00
19_E23_I0.8651.00
31_V36_A0.8631.00
14_H52_I0.8631.00
24_I38_L0.8621.00
235_A238_N0.8611.00
198_R201_E0.8541.00
70_L95_L0.8481.00
165_G198_R0.8471.00
127_N130_M0.8451.00
224_L228_G0.8421.00
172_I200_W0.8381.00
141_A209_R0.8371.00
5_L24_I0.8311.00
138_R188_L0.8271.00
21_E38_L0.8251.00
5_L31_V0.8241.00
108_R191_G0.8181.00
96_P100_G0.8181.00
156_L160_V0.8171.00
151_A177_G0.8161.00
15_G19_E0.8121.00
69_V122_D0.8121.00
145_F208_S0.8111.00
170_K186_V0.8101.00
235_A239_Y0.8031.00
67_C121_T0.7991.00
82_R90_T0.7881.00
153_L156_L0.7841.00
148_V152_K0.7841.00
144_V148_V0.7811.00
73_Y225_P0.7801.00
72_Y78_E0.7781.00
10_A17_R0.7751.00
71_A221_P0.7731.00
6_Q39_G0.7681.00
230_T233_D0.7671.00
163_E166_P0.7671.00
146_G206_Q0.7581.00
156_L172_I0.7571.00
78_E89_P0.7531.00
73_Y226_R0.7531.00
152_K155_D0.7481.00
155_D159_G0.7471.00
232_L236_Q0.7471.00
172_I186_V0.7471.00
138_R195_E0.7451.00
128_R132_P0.7381.00
59_V62_S0.7371.00
173_K187_T0.7371.00
157_S160_V0.7271.00
232_L237_T0.7201.00
156_L199_L0.7181.00
170_K189_T0.7161.00
160_V203_V0.7101.00
224_L230_T0.7091.00
18_R21_E0.7061.00
79_L88_R0.7011.00
165_G170_K0.6971.00
5_L50_I0.6951.00
200_W203_V0.6891.00
9_L14_H0.6851.00
125_L240_L0.6851.00
170_K195_E0.6851.00
9_L29_V0.6830.99
223_G226_R0.6820.99
190_E195_E0.6810.99
224_L227_G0.6760.99
169_F189_T0.6690.99
91_V119_F0.6670.99
106_V120_T0.6670.99
79_L84_D0.6640.99
71_A230_T0.6630.99
150_D154_R0.6620.99
127_N133_S0.6600.99
177_G182_Q0.6580.99
183_W209_R0.6570.99
228_G231_E0.6560.99
170_K199_L0.6520.99
161_Q165_G0.6510.99
149_D205_V0.6500.99
5_L40_D0.6500.99
187_T214_R0.6490.99
81_T85_P0.6490.99
14_H23_I0.6440.99
147_Q179_G0.6440.99
71_A118_L0.6420.99
91_V94_R0.6420.99
28_R52_I0.6380.99
89_P111_V0.6350.99
151_A155_D0.6320.99
147_Q180_I0.6310.99
234_L237_T0.6290.99
114_C197_R0.6280.99
81_T88_R0.6280.99
174_F184_Y0.6280.99
54_G57_I0.6260.99
69_V237_T0.6250.99
110_D191_G0.6220.99
83_N86_E0.6200.99
221_P230_T0.6190.99
138_R189_T0.6190.99
69_V232_L0.6170.99
68_R121_T0.6160.99
215_Y218_I0.6160.99
143_R208_S0.6160.99
145_F180_I0.6130.99
79_L85_P0.6120.99
148_V200_W0.6110.99
20_I24_I0.6110.99
82_R91_V0.6070.99
106_V129_L0.6060.99
40_D45_T0.6060.99
227_G230_T0.6060.99
108_R197_R0.6060.99
177_G180_I0.6050.99
70_L119_F0.6040.99
33_G49_K0.6040.99
225_P229_W0.6000.99
75_P78_E0.5990.99
139_E213_V0.5980.99
135_E168_A0.5970.99
97_K229_W0.5960.99
79_L90_T0.5960.99
159_G162_L0.5940.99
6_Q38_L0.5920.99
110_D197_R0.5920.99
89_P94_R0.5880.98
167_A195_E0.5880.98
226_R229_W0.5870.98
141_A211_I0.5850.98
31_V42_V0.5850.98
157_S171_T0.5820.98
193_N197_R0.5810.98
99_R103_W0.5810.98
86_E89_P0.5800.98
12_A15_G0.5770.98
188_L196_V0.5740.98
116_L215_Y0.5720.98
231_E234_L0.5720.98
67_C122_D0.5690.98
192_R195_E0.5680.98
138_R191_G0.5680.98
181_N208_S0.5660.98
73_Y211_I0.5650.98
155_D160_V0.5650.98
76_E197_R0.5650.98
147_Q181_N0.5650.98
42_V48_L0.5640.98
18_R22_S0.5640.98
160_V202_A0.5630.98
9_L12_A0.5630.98
148_V203_V0.5620.98
20_I23_I0.5600.98
60_R231_E0.5590.98
200_W207_V0.5580.98
153_L172_I0.5560.98
178_E181_N0.5540.98
72_Y117_L0.5530.98
68_R101_A0.5530.98
21_E39_G0.5460.98
16_S19_E0.5460.98
172_I184_Y0.5450.98
76_E112_N0.5400.97
164_D198_R0.5380.97
113_T194_R0.5380.97
116_L220_L0.5370.97
79_L111_V0.5350.97
72_Y91_V0.5310.97
175_S183_W0.5300.97
135_E189_T0.5300.97
156_L200_W0.5270.97
144_V207_V0.5240.97
84_D87_G0.5240.97
136_V216_G0.5240.97
108_R138_R0.5210.97
123_G126_A0.5190.97
146_G181_N0.5140.96
21_E24_I0.5110.96
142_V196_V0.5100.96
92_F95_L0.5100.96
93_D96_P0.5090.96
94_R97_K0.5090.96
7_K11_R0.5090.96
232_L240_L0.5070.96
200_W205_V0.5070.96
92_F103_W0.5020.96
163_E198_R0.5020.96
132_P136_V0.5010.96
140_Y191_G0.5000.96
211_I226_R0.5000.96
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  
1vioA 2 0.7869 100 0.219 Contact Map
4lgtA 1 0.8282 100 0.253 Contact Map
3dh3A 1 0.8213 100 0.255 Contact Map
1kskA 1 0.7973 100 0.259 Contact Map
1v9fA 1 0.7182 100 0.284 Contact Map
2gmlA 1 0.6014 100 0.367 Contact Map
2omlA 1 0.5739 100 0.372 Contact Map
2olwA 1 0.5704 100 0.373 Contact Map
2i82A 1 0.6838 100 0.434 Contact Map
1v9kA 1 0.6873 100 0.435 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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