GREMLIN Database
YTZG - Uncharacterized RNA pseudouridine synthase YtzG
UniProt: O32068 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 239 (210)
Sequences: 15163 (10264)
Seq/√Len: 708.3

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_D46_Q3.7321.00
132_T179_Y3.6801.00
167_E179_Y3.0341.00
165_K183_T2.9031.00
28_M49_T2.8471.00
134_E177_V2.8341.00
56_D109_F2.6531.00
34_A39_E2.6141.00
26_A51_Y2.6001.00
58_R114_N2.5311.00
130_P181_T2.5281.00
132_T181_T2.3161.00
61_I115_D2.3061.00
54_P66_N2.2421.00
180_L194_A2.1841.00
6_L41_V2.0121.00
134_E179_Y1.9521.00
136_H177_V1.9431.00
169_K179_Y1.9151.00
43_P46_Q1.8771.00
115_D118_L1.8671.00
20_A24_A1.8611.00
135_V180_L1.8541.00
83_V110_L1.7741.00
65_M86_L1.7731.00
13_G18_V1.7601.00
6_L10_S1.7531.00
17_E20_A1.7441.00
69_Q107_E1.7061.00
71_V86_L1.6921.00
73_S110_L1.6841.00
107_E203_Y1.6731.00
29_I39_E1.6601.00
163_P183_T1.6491.00
125_P128_H1.6191.00
165_K181_T1.5961.00
141_I176_T1.5901.00
3_L34_A1.5861.00
132_T208_S1.5541.00
102_L110_L1.5141.00
137_L178_I1.4971.00
137_L194_A1.4901.00
7_L18_V1.4881.00
178_I194_A1.4691.00
168_I176_T1.4641.00
147_S151_T1.4321.00
140_Q171_N1.4161.00
28_M33_P1.4111.00
119_A123_L1.4061.00
180_L190_V1.3931.00
97_F119_A1.3721.00
189_Q193_M1.3711.00
64_M109_F1.3691.00
164_A180_L1.3491.00
161_T164_A1.3401.00
147_S150_E1.3391.00
139_S176_T1.3351.00
107_E205_K1.3311.00
170_T177_V1.3131.00
29_I34_A1.3091.00
121_R125_P1.3001.00
21_V50_V1.2921.00
135_V178_I1.2881.00
23_K37_V1.2861.00
4_D19_K1.2761.00
188_H191_K1.2711.00
87_L112_L1.2691.00
135_V201_V1.2661.00
136_H175_N1.2611.00
29_I48_V1.2591.00
17_E21_V1.2561.00
64_M111_L1.2271.00
145_D199_N1.2111.00
117_Q121_R1.2091.00
80_Q104_K1.2041.00
138_K200_E1.2021.00
75_T84_V1.1961.00
144_E171_N1.1821.00
139_S199_N1.1741.00
82_T85_D1.1731.00
31_G49_T1.1721.00
13_G21_V1.1521.00
84_V98_P1.1451.00
141_I199_N1.1341.00
140_Q176_T1.1331.00
120_H124_S1.1191.00
59_E62_Y1.1181.00
168_I171_N1.1141.00
42_D46_Q1.1101.00
73_S98_P1.1081.00
136_H203_Y1.0981.00
166_A194_A1.0941.00
175_N202_V1.0931.00
81_Q86_L1.0921.00
19_K23_K1.0861.00
151_T155_I1.0771.00
146_I150_E1.0761.00
68_P71_V1.0731.00
113_T119_A1.0691.00
130_P183_T1.0681.00
62_Y118_L1.0651.00
21_V26_A1.0621.00
171_N176_T1.0521.00
208_S213_S1.0471.00
134_E169_K1.0441.00
137_L199_N1.0381.00
131_K182_I1.0361.00
141_I178_I1.0301.00
164_A193_M1.0271.00
155_I158_G1.0241.00
65_M87_L1.0231.00
149_L153_V1.0181.00
142_S145_D1.0121.00
8_A15_R1.0111.00
143_R168_I0.9921.00
35_K39_E0.9831.00
83_V112_L0.9751.00
72_L79_R0.9741.00
27_V50_V0.9731.00
69_Q203_Y0.9711.00
25_G33_P0.9671.00
70_G104_K0.9611.00
60_F114_N0.9581.00
137_L176_T0.9571.00
145_D167_E0.9531.00
63_L112_L0.9521.00
134_E207_L0.9511.00
164_A182_I0.9441.00
148_D152_G0.9391.00
99_A113_T0.9371.00
138_K202_V0.9301.00
138_K175_N0.9291.00
22_V37_V0.9281.00
61_I118_L0.9271.00
148_D151_T0.9231.00
63_L87_L0.9191.00
49_T54_P0.9171.00
22_V27_V0.9121.00
47_E54_P0.9101.00
195_K200_E0.9101.00
121_R124_S0.9081.00
182_I190_V0.9071.00
140_Q174_G0.9011.00
64_M212_V0.8991.00
149_L152_G0.8971.00
75_T82_T0.8961.00
105_D205_K0.8911.00
75_T98_P0.8861.00
96_P112_L0.8841.00
138_K209_M0.8741.00
155_I192_Q0.8731.00
120_H123_L0.8641.00
130_P208_S0.8631.00
113_T118_L0.8621.00
16_K19_K0.8611.00
105_D191_K0.8601.00
154_Y160_K0.8561.00
137_L141_I0.8541.00
15_R19_K0.8441.00
163_P166_A0.8431.00
154_Y157_G0.8421.00
182_I189_Q0.8401.00
138_K199_N0.8391.00
39_E42_D0.8321.00
19_K37_V0.8271.00
118_L122_L0.8241.00
171_N174_G0.8231.00
41_V48_V0.8181.00
32_K39_E0.8141.00
150_E153_V0.8101.00
39_E46_Q0.8071.00
53_E86_L0.8051.00
106_T135_V0.8041.00
153_V196_A0.7951.00
20_A23_K0.7951.00
76_E79_R0.7951.00
152_G155_I0.7891.00
116_G119_A0.7891.00
7_L13_G0.7891.00
192_Q195_K0.7821.00
142_S199_N0.7821.00
99_A122_L0.7701.00
84_V112_L0.7611.00
179_Y207_L0.7591.00
190_V201_V0.7591.00
209_M212_V0.7561.00
74_A82_T0.7551.00
73_S102_L0.7531.00
167_E181_T0.7511.00
98_P112_L0.7511.00
2_R40_H0.7451.00
13_G17_E0.7381.00
172_D175_N0.7371.00
148_D197_V0.7371.00
116_G120_H0.7351.00
137_L201_V0.7321.00
25_G35_K0.7291.00
140_Q173_S0.7291.00
194_A201_V0.7251.00
138_K174_G0.7231.00
154_Y196_A0.7211.00
146_I149_L0.7171.00
162_K183_T0.7121.00
131_K189_Q0.7061.00
141_I168_I0.7051.00
28_M51_Y0.7031.00
28_M52_G0.6981.00
86_L89_P0.6971.00
6_L48_V0.6961.00
154_Y158_G0.6901.00
106_T191_K0.6901.00
7_L27_V0.6901.00
65_M83_V0.6881.00
166_A180_L0.6851.00
5_K9_N0.6801.00
146_I151_T0.6781.00
141_I145_D0.6771.00
31_G47_E0.6741.00
146_I152_G0.6661.00
35_K38_K0.6631.00
122_L209_M0.6631.00
101_R185_G0.6591.00
73_S84_V0.6591.00
165_K168_I0.6591.00
64_M215_D0.6581.00
145_D197_V0.6581.00
18_V21_V0.6571.00
14_S17_E0.6421.00
71_V83_V0.6401.00
160_K186_K0.6401.00
85_D88_T0.6371.00
7_L10_S0.6361.00
65_M71_V0.6241.00
85_D89_P0.6221.00
121_R127_K0.6191.00
149_L206_R0.6191.00
29_I46_Q0.6181.00
120_H126_K0.6141.00
145_D168_I0.6141.00
193_M197_V0.6131.00
81_Q85_D0.6111.00
136_H202_V0.6091.00
125_P129_V0.6081.00
72_L78_S0.6061.00
4_D38_K0.6051.00
158_G186_K0.6041.00
71_V81_Q0.6021.00
3_L22_V0.6011.00
62_Y115_D0.5921.00
134_E203_Y0.5921.00
123_L209_M0.5891.00
72_L76_E0.5881.00
53_E65_M0.5871.00
131_K183_T0.5861.00
209_M213_S0.5851.00
84_V96_P0.5841.00
30_D48_V0.5791.00
70_G107_E0.5771.00
118_L121_R0.5751.00
184_E189_Q0.5741.00
7_L11_G0.5731.00
99_A119_A0.5681.00
177_V203_Y0.5671.00
54_P57_Y0.5651.00
100_G110_L0.5601.00
93_R96_P0.5601.00
138_K212_V0.5591.00
151_T154_Y0.5591.00
148_D153_V0.5571.00
73_S83_V0.5551.00
141_I171_N0.5541.00
80_Q85_D0.5521.00
131_K185_G0.5491.00
168_I178_I0.5481.00
145_D166_A0.5481.00
139_S200_E0.5471.00
22_V34_A0.5461.00
11_G18_V0.5461.00
141_I194_A0.5461.00
130_P165_K0.5461.00
149_L193_M0.5451.00
106_T190_V0.5431.00
7_L55_V0.5431.00
16_K20_A0.5391.00
63_L114_N0.5381.00
143_R171_N0.5381.00
72_L77_D0.5361.00
74_A78_S0.5361.00
72_L80_Q0.5351.00
72_L104_K0.5351.00
65_M110_L0.5321.00
53_E90_E0.5321.00
12_Y21_V0.5301.00
3_L48_V0.5251.00
66_N107_E0.5251.00
176_T199_N0.5241.00
29_I41_V0.5231.00
19_K38_K0.5221.00
113_T122_L0.5221.00
30_D47_E0.5221.00
147_S152_G0.5171.00
158_G161_T0.5171.00
169_K177_V0.5151.00
186_K189_Q0.5131.00
3_L29_I0.5110.99
192_Q196_A0.5100.99
117_Q120_H0.5090.99
162_K166_A0.5090.99
122_L125_P0.5090.99
84_V88_T0.5060.99
83_V86_L0.5060.99
40_H43_P0.5040.99
28_M31_G0.5010.99
70_G105_D0.5000.99
164_A189_Q0.5000.99
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 0.954 100 0.134 Contact Map
1kskA 1 0.9623 100 0.183 Contact Map
4lgtA 1 0.9623 100 0.185 Contact Map
3dh3A 1 0.954 100 0.188 Contact Map
1v9fA 1 0.7699 100 0.201 Contact Map
2omlA 1 0.6946 100 0.298 Contact Map
2gmlA 1 0.7197 100 0.305 Contact Map
2olwA 1 0.6904 100 0.308 Contact Map
1v9kA 1 0.7824 100 0.347 Contact Map
2i82A 1 0.8159 100 0.358 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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