Browse entries in the PDBbind-CN Database

Display Options: Structure:  




Goto PDB code:

3D presentation of molecule is powered by 3Dmol, which supports all modern browsers and mobile devices via WebGL.

           
Hold mouse button: left to rotate,middle to shift,right to zoom

Related entries of code: 5ive
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
5islRCSB PDB    PDBbind330aa, >5ISL:A|PDBID|CHAIN|... *
5ivcRCSB PDB    PDBbind330aa, >5IVC:A|PDBID|CHAIN|... at 100%
5ivfRCSB PDB    PDBbind330aa, >5IVF:A|PDBID|CHAIN|... at 100%
5ivjRCSB PDB    PDBbind330aa, >5IVJ:A|PDBID|CHAIN|... at 100%
5ivvRCSB PDB    PDBbind330aa, >5IVV:A|PDBID|CHAIN|... at 100%
5ivyRCSB PDB    PDBbind330aa, >5IVY:A|PDBID|CHAIN|... at 100%
5iw0RCSB PDB    PDBbind330aa, >5IW0:A|PDBID|CHAIN|... at 100%
6bguRCSB PDB    PDBbind330aa, >6BGU:A|PDBID|CHAIN|... at 100%
6bgvRCSB PDB    PDBbind330aa, >6BGV:A|PDBID|CHAIN|... at 100%
6bgwRCSB PDB    PDBbind330aa, >6BGW:A|PDBID|CHAIN|... at 100%
6bgxRCSB PDB    PDBbind330aa, >6BGX:A|PDBID|CHAIN|... at 100%
6bgyRCSB PDB    PDBbind330aa, >6BGY:A|PDBID|CHAIN|... at 100%
6bgzRCSB PDB    PDBbind330aa, >6BGZ:A|PDBID|CHAIN|... at 100%
6bh0RCSB PDB    PDBbind330aa, >6BH0:A|PDBID|CHAIN|... at 100%
6bh1RCSB PDB    PDBbind330aa, >6BH1:A|PDBID|CHAIN|... at 100%
6bh2RCSB PDB    PDBbind330aa, >6BH2:A|PDBID|CHAIN|... at 100%
6bh3RCSB PDB    PDBbind330aa, >6BH3:A|PDBID|CHAIN|... at 100%
6bh5RCSB PDB    PDBbind330aa, >6BH5:A|PDBID|CHAIN|... at 100%
6dq4RCSB PDB    PDBbind330aa, >6DQ4:A|PDBID|CHAIN|... at 100%
6dq5RCSB PDB    PDBbind330aa, >6DQ5:A|PDBID|CHAIN|... at 100%
6dq6RCSB PDB    PDBbind330aa, >6DQ6:A|PDBID|CHAIN|... at 100%
6dq8RCSB PDB    PDBbind330aa, >6DQ8:A|PDBID|CHAIN|... at 100%
6dqaRCSB PDB    PDBbind330aa, >6DQA:A|PDBID|CHAIN|... at 100%
6dqbRCSB PDB    PDBbind330aa, >6DQB:A|PDBID|CHAIN|... at 100%
Complexes with the same small molecule ligand
PDB CodeCheck DatabaseLigand Name
No complexes with the same small molecule ligand are found!

Entry Information
PDB ID5ive
Complex TypeProtein-Ligand
PDBbind Subsetrefined set
Protein NameLysine-specific demethylase 5A, Linked KDM5A Jmj Domain
Ligand Name6E8
EC.Number E.C.1.14.11
Resolution 1.78(Å)
Affinity (Kd/Ki/IC50)Kd=0.027uM
Release Year2016
Protein/NA SequenceCheck fasta file
Primary Reference (2016) Cell Chem Biol Vol. 23: pp. 769-781
Ligand Properties
Formula C11H12N4O
Molecular Weight 216.239
Exact Mass 216.101
No. of atoms 28
No. of bonds 29
Polar Surface Area 73.95
LOGP Value 1.54      (Computed with XLOGP3)
1.33      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 1
No. of Hydrogen Bond Acceptors: 3
No. of Rotatable Bonds: 1
No. of Nitrogen and Oxygen Atoms: 5
No. of Rings: 2
Canonical SMILES
InChI String

Links to External Databases
RCSB PDBThe mother database
PDBsumEnhanced annotations on PDB entries
PubchemComprehensive collection of chemical and biological data
UniProtKB ACUniProt accession number (AC): P29375  
Entrez Gene IDNCBI Entrez Gene ID: 5927  
ASDInformation of known allosteric effects of PDB entries

 
This site has been visited times since Nov 2007.


Address: 826 Zhangheng Road, Shanghai 201203, People's Republic of China      ICP NO: Shanghai-05005485-2
Group Leader: wangrx@fudan.edu.cn      Tel: +86-21-54925128      Webmaster: liuhai@mail.sioc.ac.cn
Copyright ©2007-2020    Department of Medicinal Chemistry, School of Pharmacy, Fudan University, P.R. China