Receptor
PDB id Resolution Class Description Source Keywords
3T3O 2.5 Å EC: 3.-.-.- MOLECULAR BASIS FOR THE RECOGNITION AND CLEAVAGE OF RNA (CUG BIFUNCTIONAL 5'-3' EXO/ENDORIBONUCLEASE RNASE J THERMUS THERMOPHILUS HB27 PROTEIN-RNA COMPLEX METALLO-BETA-LACTAMASE RNASE J ENDORIBONUCLEASE 5-prime -3-prime EXORIBONUCLEASE METAL DEPENDENT HYRNA HYDROLASE HYDROLASE-RNA COMPLEX
Ref.: MOLECULAR BASIS FOR THE RECOGNITION AND CLEAVAGE OF THE BIFUNCTIONAL 5'-3' EXO/ENDORIBONUCLEASE RNASE J STRUCTURE V. 19 1252 2011
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
GOL A:701;
Invalid;
none;
submit data
92.094 C3 H8 O3 C(C(C...
OMC OMU OMG OMG U B:901;
Valid;
none;
submit data
1676.01 n/a P(=O)...
ZN A:600;
Part of Protein;
none;
submit data
65.409 Zn [Zn+2...
View in 3D viewer
90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
3BK2 2.1 Å EC: 3.-.-.- CRYSTAL STRUCTURE ANALYSIS OF THE RNASE J/UMP COMPLEX THERMUS THERMOPHILUS RNASE J ENDORIBONUCLEASE EXORIBONUCLEASE METAL DEPENDENT HYDROLASE METALLO-BETA-LACTAMASE HYDROLASE
Ref.: STRUCTURAL INSIGHTS INTO THE DUAL ACTIVITY OF RNASE NAT.STRUCT.MOL.BIOL. V. 15 206 2008
Members (2)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 312 families.
1 3T3O - OMC OMU OMG OMG U n/a n/a
2 3BK2 - U5P C9 H13 N2 O9 P C1=CN(C(=O....
70% Homology Family (3)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 261 families.
1 3T3O - OMC OMU OMG OMG U n/a n/a
2 3BK2 - U5P C9 H13 N2 O9 P C1=CN(C(=O....
3 4XWT - U5P C9 H13 N2 O9 P C1=CN(C(=O....
50% Homology Family (3)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 214 families.
1 3T3O - OMC OMU OMG OMG U n/a n/a
2 3BK2 - U5P C9 H13 N2 O9 P C1=CN(C(=O....
3 4XWT - U5P C9 H13 N2 O9 P C1=CN(C(=O....
Polypharmacology
Similar Ligands (2D)
Ligand no: 1; Ligand: OMC OMU OMG OMG U; Similar ligands found: 25
No: Ligand ECFP6 Tc MDL keys Tc
1 OMC OMU OMG OMG U 1 1
2 G C 0.647059 0.939024
3 G 5MC C U 0.625 0.928571
4 G 6MZ C U 0.56051 0.950617
5 GPC 0.544218 0.873563
6 6MZ C U 0.528302 0.939024
7 CG2 0.506757 0.904762
8 U2G 0.493243 0.904762
9 CSQ 0.478571 0.77907
10 CSV 0.478571 0.77907
11 M7G A2M G 0.469274 0.909091
12 UCG 0.4625 0.903614
13 G G 6MZ C 0.43871 0.939024
14 GDP BEF 0.421429 0.879518
15 G3D 0.41844 0.855422
16 GTP MG 0.41844 0.901235
17 ALF 5GP 0.414286 0.83908
18 GDP 7MG 0.410596 0.950617
19 UDP UDP 0.407692 0.777778
20 GDP AF3 0.406897 0.83908
21 GDP ALF 0.406897 0.83908
22 3PD UM3 0.405063 0.882353
23 2GP 0.402985 0.833333
24 CDP MG 0.401515 0.82716
25 GPG 0.401361 0.880952
Similar Ligands (3D)
Ligand no: 1; Ligand: OMC OMU OMG OMG U; Similar ligands found: 0
No: Ligand Similarity coefficient
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 3BK2; Ligand: U5P; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 1) in the query (biounit: 3bk2.bio1) has 17 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 2; Query (leader) PDB : 3BK2; Ligand: U5P; 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: 3bk2.bio1) has 17 residues
No: Leader PDB Ligand Sequence Similarity
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