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: 5yij
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
1cmxRCSB PDB    PDBbind76aa, >1CMX_2|Chains... at 100%
1xd3RCSB PDB    PDBbind75aa, >1XD3_2|Chains... at 100%
2hd5RCSB PDB    PDBbind76aa, >2HD5_2|Chain... at 100%
2xbbRCSB PDB    PDBbind76aa, >2XBB_2|Chains... at 100%
2y5bRCSB PDB    PDBbind152aa, >2Y5B_2|Chains... at 99%
3dvgRCSB PDB    PDBbind79aa, >3DVG_4|Chain... at 94%
3dvnRCSB PDB    PDBbind79aa, >3DVN_4|Chains... at 94%
3kw5RCSB PDB    PDBbind75aa, >3KW5_2|Chain... at 100%
3olmRCSB PDB    PDBbind79aa, >3OLM_2|Chain... at 92%
3rulRCSB PDB    PDBbind79aa, >3RUL_1|Chains... at 94%
3znzRCSB PDB    PDBbind152aa, >3ZNZ_2|Chain... at 100%
4i6lRCSB PDB    PDBbind76aa, >4I6L_2|Chain... at 90%
4m0wRCSB PDB    PDBbind76aa, >4M0W_2|Chain... at 100%
5e6jRCSB PDB    PDBbind76aa, >5E6J_2|Chains... at 97%
5gviRCSB PDB    PDBbind72aa, >5GVI_3|Chain... at 100%
5l6hRCSB PDB    PDBbind76aa, >5L6H_2|Chains... at 96%
5l6iRCSB PDB    PDBbind76aa, >5L6I_2|Chains... at 96%
5l6jRCSB PDB    PDBbind76aa, >5L6J_2|Chains... at 96%
5lrwRCSB PDB    PDBbind76aa, >5LRW_2|Chains... at 98%
5ohpRCSB PDB    PDBbind76aa, >5OHP_2|Chains... at 100%
5ydrRCSB PDB    PDBbind75aa, >5YDR_1|Chains... at 97%
6isuRCSB PDB    PDBbind76aa, >6ISU_3|Chain... at 100%
Complexes with the same small molecule ligand
PDB CodeCheck DatabaseLigand Name
3te5RCSB PDB    PDBbindNAI
5yvtRCSB PDB    PDBbindNAI
Entry Information
PDB ID5yij
Complex TypeProtein-Ligand
PDBbind Subsetgeneral set
Protein Namewild-type SdeA(231-1190)
Ligand NameNAI
EC.Number E.C.-.-.-.-
Resolution 3.18(Å)
Affinity (Kd/Ki/IC50)Kd=381uM
Release Year2018
Protein/NA SequenceCheck fasta file
Primary Reference (2018) Nature Vol. 557: pp. 674-678
Ligand Properties
Formula C21H30N7O14P2
Molecular Weight 666.449
Exact Mass 666.133
No. of atoms 74
No. of bonds 78
Polar Surface Area 351.76
LOGP Value -6.12      (Computed with XLOGP3)
-2.61      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 6
No. of Hydrogen Bond Acceptors: 12
No. of Rotatable Bonds: 15
No. of Nitrogen and Oxygen Atoms: 21
No. of Rings: 5
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): Q6RCR0  P0CG47  
Entrez Gene IDNCBI Entrez Gene ID: 7314  
ASDInformation of known allosteric effects of PDB entries
 
This site has been visited times since Nov 2007.


Copyright ©2007-2024    涓婃捣鐩堣禌鎬濅俊鎭鎶鏈夐檺鍏徃    缃戠珯澶囨鍙凤細娌狪CP澶2021015625鍙-3    娌叕缃戝畨澶囷細姝ｅ湪鐢宠涓


Technical Support锛堟妧鏈敮鎸侊級: yingsaisi@foxmail.com