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Receptor
PDB id Resolution Class Description Source Keywords
4CCN 2.23 Å EC: 1.14.11.27 60S RIBOSOMAL PROTEIN L8 HISTIDINE HYDROXYLASE (NO66 L299C/C COMPLEX WITH MN(II), N-OXALYLGLYCINE (NOG) AND 60S RIBOSOMAL 8 (RPL8 G220C) PEPTIDE FRAGMENT (COMPLEX-2) HOMO SAPIENS OXIDOREDUCTASE NON-HEME IRON-BINDING DSBH 2- OXOGLUTARATDIOXYGENASE JMJC DOMAIN RIBOSOME BIOGENESIS NUCLEAR PROTRPL8 BETA-HYDROXYLATION TRANSCRIPTION AND EPIGENETIC REGUSIGNALING
Ref.: RIBOSOMAL OXYGENASES ARE STRUCTURALLY CONSERVED FRO PROKARYOTES TO HUMANS. NATURE V. 510 422 2014
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
OGA B:902;
A:902;
Valid;
Valid;
none;
none;
submit data
147.086 C4 H5 N O5 C(C(=...
EDO B:904;
Invalid;
none;
submit data
62.068 C2 H6 O2 C(CO)...
SO4 B:903;
A:903;
Invalid;
Invalid;
none;
none;
submit data
96.063 O4 S [O-]S...
MN B:901;
A:901;
Part of Protein;
Part of Protein;
none;
none;
submit data
54.938 Mn [Mn+2...
View in 3D viewer
90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
4CCN 2.23 Å EC: 1.14.11.27 60S RIBOSOMAL PROTEIN L8 HISTIDINE HYDROXYLASE (NO66 L299C/C COMPLEX WITH MN(II), N-OXALYLGLYCINE (NOG) AND 60S RIBOSOMAL 8 (RPL8 G220C) PEPTIDE FRAGMENT (COMPLEX-2) HOMO SAPIENS OXIDOREDUCTASE NON-HEME IRON-BINDING DSBH 2- OXOGLUTARATDIOXYGENASE JMJC DOMAIN RIBOSOME BIOGENESIS NUCLEAR PROTRPL8 BETA-HYDROXYLATION TRANSCRIPTION AND EPIGENETIC REGUSIGNALING
Ref.: RIBOSOMAL OXYGENASES ARE STRUCTURALLY CONSERVED FRO PROKARYOTES TO HUMANS. NATURE V. 510 422 2014
Members (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 13 families.
1 4CCN - OGA C4 H5 N O5 C(C(=O)O)N....
70% Homology Family (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 11 families.
1 4CCN - OGA C4 H5 N O5 C(C(=O)O)N....
50% Homology Family (2)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 9 families.
1 4CCO - OGA C4 H5 N O5 C(C(=O)O)N....
2 4CCN - OGA C4 H5 N O5 C(C(=O)O)N....
Polypharmacology
Similar Ligands
Ligand no: 1; Ligand: OGA; Similar ligands found: 2
No: Ligand ECFP6 Tc MDL keys Tc
1 OGA 1 1
2 AAC 0.461538 0.827586
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 4CCN; Ligand: OGA; Similar sites found with APoc: 202
This union binding pocket(no: 1) in the query (biounit: 4ccn.bio1) has 12 residues
No: Leader PDB Ligand Sequence Similarity
1 2QZT PLM None
2 4TW7 37K None
3 1OGX EQU None
4 3H9A PPY 1.64609
5 2V3V MGD 1.71306
6 6EXF LYS 1.88172
7 2ZYI STE 1.92719
8 3WW2 SF6 1.95312
9 3NNF AKG 2.03488
10 4ITU 1HS 2.23048
11 1GP6 QUE 2.24719
12 1GP6 DH2 2.24719
13 1GP6 SIN 2.24719
14 2GDZ NAD 2.24719
15 5T8O 76Z 2.29226
16 4XCB HY0 2.29885
17 4XCB AKG 2.29885
18 5MY8 RXZ 2.34987
19 2WL9 MBD 2.62295
20 5O9W AKG 2.7248
21 4IE6 UN9 2.78373
22 3AVR OGA 2.78373
23 6FUL E7Z 2.78373
24 4UF0 MMK 2.99786
25 5E2N V14 3.04183
26 5OX6 A1Z 3.1746
27 5L9B AKG 3.1746
28 2FLI DX5 3.18182
29 5EPA AKG 3.22581
30 3HQR OGA 3.25203
31 3VRY B43 3.30396
32 4OJ8 AKG 3.41297
33 4OJ8 2TQ 3.41297
34 5OC1 ANN 3.42612
35 6F5W KG1 3.52304
36 5FPX GLY SER SER HIS HIS HIS HIS HIS 3.53982
37 1NX4 AKG 3.663
38 4QTB 38Z 3.68421
39 1GQG DCD 3.71429
40 4Z28 BTN 3.73134
41 5C3R AKG 3.79009
42 5C3R HMU 3.79009
43 5XEG AKG 3.8961
44 1TKB N1T 4.06852
45 5HV0 AKG 4.14747
46 2ZSC BTN 4.25532
47 4NBU NAI 4.4
48 1GT4 UNA 4.40252
49 4YRD 3IT 4.45682
50 2QF7 AGS 4.49679
51 2R5N TPP 4.49679
52 2R5N R5P 4.49679
53 2R5N RP5 4.49679
54 5TFZ 7BC 4.66667
55 6CZ3 FLJ 4.92424
56 3BRN SRO 5.09554
57 1ODM ASV 5.13595
58 3EW2 BTN 5.18518
59 4JNJ BTN 5.21739
60 4WW8 VD9 5.32319
61 5IVE 6E8 5.45455
62 4ER2 IVA VAL VAL STA ALA STA 5.45455
63 5L9V OGA 5.55556
64 4EKV BTN 5.66038
65 2WCJ M21 5.67376
66 5C5T AKG 5.70175
67 5ML3 DL3 5.71429
68 2WYA HMG 5.71429
69 5TCI 79V 5.71429
70 5D6T NGA 5.71429
71 4ZL4 4PK 5.85586
72 2IUW AKG 5.88235
73 3RDO BTN 5.88235
74 4XAC AKG 5.95238
75 4GGZ BTN 6.08696
76 3H7J PPY 6.17284
77 6FE1 V14 6.22568
78 1L2T ATP 6.38298
79 4NPL AKG 6.4
80 4P7X YCP 6.50685
81 4P7X AKG 6.50685
82 3SCH TB6 6.56566
83 1ZZ7 S0H 6.56566
84 6F6D AKG 6.63812
85 5FP3 3JI 6.63812
86 2BR6 HSL 6.74603
87 2P7Q GG6 6.76692
88 2YG2 S1P 6.97674
89 2GOO NDG 7.01754
90 3JRS A8S 7.21154
91 3VHH VHH 7.31707
92 5AA4 6X4 7.5388
93 2WBP ZZU 7.5419
94 2WBP SIN 7.5419
95 5N0L ILE 8.1761
96 3AMN CBK 8.30189
97 3AMN CBI 8.30189
98 1FKB RAP 8.41121
99 2GC0 PAN 8.57143
100 6ALW BMJ 8.57143
101 6BFN DL1 8.57143
102 2X32 OTP 8.57143
103 2X34 UQ8 8.57143
104 2IXC TRH 8.57143
105 2ARC ARA 8.57143
106 4K33 ACP 8.57143
107 2X06 NAD 8.57143
108 1J3R 6PG 8.57143
109 5EQU AKG 8.85246
110 6F6J SIN 8.93855
111 6F6J CUW 8.93855
112 3FW3 ETS 9.02256
113 3QRC SCR 9.55414
114 4LIT AKG 9.58231
115 5M0T AKG 9.86395
116 5TO8 7FM 9.92908
117 4OCT AKG 10.3604
118 2JIG PD2 10.7143
119 5LY2 OGA 11.2861
120 5FWE OGA 11.2861
121 6H8P OGA 11.2861
122 4J25 OGA 11.4286
123 5JWP AKG 11.4286
124 1UNB PN1 11.4286
125 1UNB AKG 11.4286
126 1OIJ AKG 11.4286
127 1OIK AKG 11.4286
128 4RFR RHN 11.4286
129 5UIU 8CG 11.4286
130 1OS7 AKG 11.4286
131 1OS7 TAU 11.4286
132 2ET1 GLV 11.4286
133 6HDT BTN 11.4286
134 5CJF 520 11.4286
135 1OIK C26 11.4286
136 4PNI KQQ 11.4286
137 5ZM4 AKG 11.4286
138 1DMY AZM 11.6935
139 4BJ8 BTN 11.9048
140 2Q8E OGA 12.2159
141 2P5B OGA 12.2159
142 4IGQ OGA 14.2857
143 3PDT ADP 14.2857
144 4IGQ THR M3L GLN 14.2857
145 2IV2 2MD 14.2857
146 4UX9 ANP 14.2857
147 1X0P FAD 14.6853
148 5FP4 YC8 14.9701
149 2BYC FMN 15.3285
150 2Y0I AKG 16.4773
151 2WA4 069 16.6189
152 1H2M OGA 16.6189
153 1H2K OGA 16.6189
154 3P3N AKG 16.6189
155 2XUM OGA 16.6189
156 4B7E OGA 16.6189
157 2RDQ AKG 16.6667
158 5A3T MMK 17.1429
159 4BG1 IVL 17.1429
160 4BG1 OGA 17.1429
161 1DRY AAG 17.1429
162 1DRY AKG 17.1429
163 5FWJ MMK 17.1429
164 2FCU AKG 17.1429
165 5VZ0 ADP 17.1429
166 5YBN AKG 17.1429
167 2C1Q BTN 17.1429
168 1Y0G 8PP 17.1429
169 5YBL AKG 17.1429
170 5V1B 8UY 17.1429
171 5X8I SQZ 17.1429
172 5FLJ QUE 19.3548
173 5NCJ SIN 20
174 4M26 ZZU 20
175 5NCJ HL5 20
176 4M26 SIN 20
177 4M26 AKG 20
178 5KR7 6X9 20
179 4H6B 10X 20
180 4WO4 JLS 20
181 5XS3 VAL ARG SER ARG ARG CYS LEU ARG LEU 20
182 2TPS TPS 20
183 5YJS SAL 20
184 2IYG FMN 22.5806
185 6FXR AKG 22.8571
186 2JBM SRT 22.8571
187 5UQD AKG 22.8571
188 5TPU TYD 22.8571
189 2HFN FMN 22.8571
190 1YRX FMN 23.1405
191 5LUN ARG 25.7143
192 2OG7 SIN 25.7143
193 6EOZ AKG 25.7143
194 6EOZ 58K 25.7143
195 5LUN OGA 25.7143
196 3W21 AKG 25.7143
197 3STD MQ0 25.7143
198 2CWH NDP 28.5714
199 5IQT AKG 31.4286
200 5IQT 6CU 31.4286
201 4WUP 3UF 37.1429
202 5EXE 5SR 37.1429
Pocket No.: 2; Query (leader) PDB : 4CCN; Ligand: OGA; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 2) in the query (biounit: 4ccn.bio1) has 12 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 3; Query (leader) PDB : 4CCN; Ligand: OGA; Similar sites found with APoc: 74
This union binding pocket(no: 3) in the query (biounit: 4ccn.bio1) has 12 residues
No: Leader PDB Ligand Sequence Similarity
1 4LRL DGT 1.49893
2 4RGQ 13P 1.90217
3 4RGQ 1GP 1.90217
4 5EO8 TFU 1.92926
5 4ITU NAI 2.23048
6 5J6D 6H5 2.28013
7 5I0U DCY 2.5
8 3ZDS HMQ 2.54042
9 3ZDS OMD 2.54042
10 3ZDS HQ9 2.54042
11 3ZDS M8O 2.54042
12 4O9S 2RY 2.7907
13 4YGF AZM 2.99145
14 3SAO NKN 3.125
15 3V8S 0HD 3.17073
16 4JGP PYR 3.22581
17 5L4S 6KX 3.77358
18 5L4S NAP 3.77358
19 1IID NHM 3.79147
20 5W1E PHB 3.85439
21 3F7Z 34O 4.28571
22 2YI0 YI0 4.36681
23 2VQ5 HBA 4.47761
24 5KOD AMP 4.49679
25 4JGX PLM 4.65116
26 3A28 NAD 5.03876
27 1NWW HPN 5.36913
28 3JUQ AJD 5.40541
29 2WPU KYT 5.66038
30 3UDZ ADP 5.71429
31 4EIP K2C 5.71429
32 1GT6 OLA 5.94796
33 5KBE IPH 6.11354
34 6BXI ANP 6.60661
35 1I06 TZL 6.66667
36 1QY1 PRZ 6.89655
37 3E85 BSU 6.96203
38 2YG2 FLC 6.97674
39 3Q60 ATP 7.81671
40 5KZD RCJ 7.84983
41 5HQ0 LZ9 8.33333
42 4B2G V1N 8.57143
43 1FDQ HXA 9.16031
44 4QAC KK3 10.1382
45 1Y52 BTN 11.1111
46 2PR5 FMN 11.3636
47 4D52 GIV 11.4286
48 4D52 GXL 11.4286
49 1OFZ FUC 11.4286
50 5YW0 SIN 11.4286
51 1OFZ FUL 11.4286
52 1ERB ETR 13.6612
53 3ZW2 GLA NAG GAL FUC 13.7931
54 3ZW2 NAG GAL FUC 13.7931
55 5MZI FAD 14.2857
56 5MZI FYK 14.2857
57 6FYL 3NG 14.2857
58 1Q8Y ADP 14.2857
59 3W8X FTK 14.2857
60 4ZU4 4TG 14.2857
61 4BX7 B4F 14.8438
62 1WBI BTN 16.2791
63 1ZOA 140 17.1429
64 6A9F 9BF 17.1429
65 1DE6 RNS 17.1429
66 3B1Q NOS 17.1429
67 6F7X MFU 17.7778
68 3PQB VGP 20
69 4CSD MFU 20
70 5JZJ AN2 22.8571
71 1VPV PLM 25.7143
72 4E1O PLP PVH 31.4286
73 1QVJ RP5 34.2857
74 1TV5 FMN 37.1429
Pocket No.: 4; Query (leader) PDB : 4CCN; Ligand: OGA; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 4) in the query (biounit: 4ccn.bio1) has 12 residues
No: Leader PDB Ligand Sequence Similarity
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