GREMLIN Database
RSUA - Ribosomal small subunit pseudouridine synthase A
UniProt: P0AA43 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12044
Length: 231 (207)
Sequences: 15173 (10113)
Seq/√Len: 702.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
30_D45_H3.9061.00
131_T175_R3.8591.00
162_K179_S3.2731.00
133_L173_Q3.0151.00
28_T48_A2.9401.00
26_R50_D2.7931.00
34_V39_F2.7551.00
129_E177_T2.6611.00
58_H113_D2.6051.00
164_A175_R2.5701.00
61_R114_D2.4631.00
131_T177_T2.3631.00
176_L190_F2.1611.00
133_L175_R2.0521.00
135_T173_Q2.0501.00
6_F41_L2.0451.00
114_D117_W1.9661.00
20_R24_G1.9491.00
134_V176_L1.9411.00
83_V109_V1.8521.00
146_E150_K1.8501.00
65_L86_F1.8291.00
13_V18_A1.8241.00
69_Q106_T1.8181.00
17_I20_R1.7961.00
106_T199_E1.7761.00
71_Y86_F1.7731.00
6_F10_Q1.7621.00
73_C109_V1.7071.00
29_V39_F1.7011.00
146_E149_A1.6971.00
140_V172_T1.6951.00
7_I18_A1.6871.00
3_L34_V1.6711.00
131_T204_R1.6451.00
160_L179_S1.5681.00
101_L109_V1.5581.00
174_V190_F1.5431.00
136_L174_V1.5281.00
166_L175_R1.5181.00
28_T33_I1.5071.00
136_L190_F1.4911.00
56_Q59_G1.4891.00
96_H118_S1.4821.00
138_S172_T1.4771.00
165_V172_T1.4741.00
118_S122_T1.4711.00
64_M108_L1.4511.00
185_Q189_M1.4431.00
176_L186_V1.4331.00
106_T201_H1.4141.00
4_D19_G1.3721.00
21_E49_Y1.3541.00
29_V34_V1.3511.00
184_H187_K1.3491.00
144_T195_N1.3461.00
23_R37_A1.3441.00
134_V174_V1.3161.00
137_E196_H1.3091.00
139_P168_V1.3081.00
134_V197_V1.3061.00
64_M110_L1.2901.00
162_K177_T1.2891.00
81_P86_F1.2881.00
161_T176_L1.2571.00
17_I21_E1.2451.00
87_L111_M1.2451.00
31_G48_A1.2221.00
75_T84_L1.2211.00
29_V47_V1.2161.00
143_D168_V1.2131.00
138_S195_N1.2071.00
73_C97_A1.1931.00
80_H103_I1.1861.00
165_V168_V1.1831.00
116_Q120_R1.1831.00
139_P172_T1.1821.00
84_L97_A1.1681.00
140_V195_N1.1651.00
135_T199_E1.1651.00
68_P71_Y1.1601.00
8_A15_R1.1541.00
82_T85_Y1.1521.00
42_L45_H1.1441.00
144_T164_A1.1411.00
119_H123_S1.1401.00
21_E26_R1.1341.00
13_V21_E1.1331.00
59_G62_Y1.1331.00
19_G23_R1.1291.00
46_D53_P1.1151.00
112_T118_S1.1081.00
62_Y117_W1.1021.00
145_A149_A1.0841.00
136_L195_N1.0821.00
27_V49_Y1.0811.00
130_K178_I1.0731.00
135_T171_P1.0701.00
129_E179_S1.0681.00
136_L172_T1.0631.00
204_R209_T1.0601.00
70_G103_I1.0511.00
65_L87_L1.0431.00
35_R39_F1.0401.00
147_Q150_K1.0371.00
154_L188_R1.0301.00
141_A144_T1.0291.00
63_F91_V1.0271.00
140_V174_V1.0251.00
60_P113_D1.0141.00
149_A152_V1.0111.00
133_L203_E1.0051.00
137_E198_V1.0001.00
25_N33_I0.9991.00
69_Q199_E0.9901.00
72_V79_D0.9841.00
168_V172_T0.9801.00
191_A196_H0.9751.00
157_E182_R0.9751.00
161_T189_M0.9561.00
148_F152_V0.9551.00
129_E204_R0.9491.00
22_I37_A0.9471.00
142_D168_V0.9451.00
98_A112_T0.9431.00
75_T97_A0.9411.00
88_D91_V0.9371.00
83_V111_M0.9281.00
64_M208_I0.9221.00
137_E205_I0.9201.00
48_A53_P0.9181.00
63_F87_L0.9181.00
120_R123_S0.9151.00
147_Q151_G0.9131.00
22_I27_V0.9091.00
63_F111_M0.9081.00
75_T82_T0.9061.00
152_V192_A0.9001.00
104_D187_K0.8871.00
163_P190_F0.8851.00
133_L166_L0.8771.00
61_R117_W0.8731.00
112_T117_W0.8731.00
95_L111_M0.8721.00
178_I186_V0.8711.00
16_A19_G0.8651.00
20_R23_R0.8621.00
137_E195_N0.8601.00
119_H122_T0.8591.00
41_L47_V0.8561.00
152_V156_N0.8521.00
32_E39_F0.8501.00
188_R191_A0.8491.00
178_I185_Q0.8481.00
15_R19_G0.8441.00
104_D201_H0.8391.00
7_I13_V0.8351.00
170_T173_Q0.8331.00
136_L140_V0.8321.00
39_F42_L0.8231.00
105_T134_V0.8211.00
161_T166_L0.8181.00
175_R203_E0.8181.00
115_G118_S0.8161.00
39_F45_H0.8161.00
19_G37_A0.8121.00
76_D79_D0.8061.00
65_L83_V0.8031.00
117_W121_I0.8031.00
144_T193_V0.8011.00
159_D163_P0.7961.00
141_A195_N0.7951.00
171_P198_V0.7871.00
148_F151_G0.7841.00
190_F197_V0.7811.00
161_T164_A0.7761.00
98_A121_I0.7601.00
147_Q193_V0.7591.00
105_T187_K0.7571.00
115_G119_H0.7511.00
7_I27_V0.7461.00
153_Q156_N0.7451.00
6_F47_V0.7371.00
85_Y88_D0.7351.00
73_C101_L0.7321.00
31_G46_D0.7311.00
28_T51_G0.7301.00
84_L111_M0.7281.00
13_V17_I0.7261.00
25_N35_R0.7231.00
97_A111_M0.7211.00
35_R38_A0.7201.00
140_V144_T0.7201.00
148_F202_R0.7191.00
86_F89_E0.7191.00
88_D92_A0.7181.00
130_K185_Q0.7151.00
205_I208_I0.7141.00
136_L197_V0.7131.00
28_T50_D0.7131.00
121_I205_I0.7041.00
186_V197_V0.7031.00
161_T178_I0.6981.00
169_I173_Q0.6961.00
74_S82_T0.6951.00
167_E173_Q0.6941.00
2_R40_K0.6891.00
142_D165_V0.6891.00
100_R181_G0.6821.00
162_K165_V0.6771.00
120_R126_H0.6751.00
5_K9_Q0.6751.00
130_K179_S0.6671.00
3_L22_I0.6641.00
135_T198_V0.6631.00
122_T205_I0.6621.00
11_L18_A0.6621.00
65_L71_Y0.6601.00
154_L157_E0.6571.00
14_S17_I0.6561.00
145_A148_F0.6531.00
29_V45_H0.6521.00
139_P170_T0.6481.00
18_A21_E0.6481.00
160_L163_P0.6431.00
161_T165_V0.6311.00
80_H85_Y0.6301.00
140_V165_V0.6301.00
146_E151_G0.6281.00
51_G54_L0.6271.00
140_V168_V0.6271.00
145_A151_G0.6251.00
189_M193_V0.6171.00
117_W120_R0.6111.00
133_L199_E0.6051.00
4_D38_A0.6021.00
105_T186_V0.6011.00
137_E171_P0.5971.00
85_Y89_E0.5961.00
73_C84_L0.5951.00
150_K153_Q0.5921.00
161_T185_Q0.5911.00
140_V190_F0.5891.00
72_V78_P0.5841.00
71_Y83_V0.5811.00
98_A118_S0.5791.00
29_V41_L0.5791.00
163_P176_L0.5771.00
72_V76_D0.5771.00
99_G109_V0.5761.00
84_L95_L0.5731.00
180_E185_Q0.5731.00
83_V86_F0.5711.00
205_I209_T0.5691.00
72_V103_I0.5681.00
144_T163_P0.5621.00
159_D182_R0.5621.00
137_E208_I0.5611.00
119_H125_R0.5601.00
156_N188_R0.5581.00
7_I54_L0.5561.00
84_L88_D0.5551.00
62_Y114_D0.5551.00
173_Q199_E0.5531.00
70_G106_T0.5521.00
167_E175_R0.5511.00
135_T169_I0.5491.00
116_Q119_H0.5481.00
132_Y181_G0.5471.00
3_L47_V0.5461.00
81_P85_Y0.5441.00
73_C83_V0.5441.00
71_Y81_P0.5401.00
139_P143_D0.5401.00
40_K43_P0.5391.00
19_G38_A0.5381.00
163_P168_V0.5371.00
130_K181_G0.5351.00
153_Q160_L0.5341.00
72_V77_D0.5341.00
163_P167_E0.5331.00
66_N106_T0.5321.00
98_A110_L0.5301.00
7_I11_L0.5291.00
182_R185_Q0.5281.00
164_A168_V0.5271.00
164_A177_T0.5251.00
30_D47_V0.5251.00
58_H91_V0.5251.00
155_H188_R0.5231.00
69_Q104_D0.5231.00
146_E152_V0.5201.00
7_I10_Q0.5171.00
12_G21_E0.5151.00
74_S78_P0.5141.00
112_T121_I0.5120.99
3_L39_F0.5120.99
91_V113_D0.5110.99
161_T169_I0.5110.99
148_F189_M0.5080.99
63_F90_P0.5050.99
70_G104_D0.5040.99
56_Q108_L0.5030.99
10_Q13_V0.5030.99
172_T195_N0.5030.99
12_G49_Y0.5020.99
58_H93_W0.5010.99
75_T83_V0.5000.99
8_A18_A0.5000.99
145_A150_K0.5000.99
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 0.9913 100 0.095 Contact Map
1kskA 1 1 100 0.136 Contact Map
3dh3A 1 0.9697 100 0.152 Contact Map
4lgtA 1 0.974 100 0.166 Contact Map
1v9fA 1 0.7619 100 0.184 Contact Map
2gmlA 1 0.7229 100 0.301 Contact Map
2omlA 1 0.71 100 0.306 Contact Map
2olwA 1 0.7056 100 0.314 Contact Map
1v9kA 1 0.7749 100 0.357 Contact Map
2i82A 1 0.8182 100 0.364 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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