OCA Atlas for 4D09

4D09

date

authors

compound

source

symmetry

R_factor

R_Free

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma

method

X-Ray Diffraction

resolution

ligand

788, MG, ZN

enzyme

Gene
Ontology

Chain	Function	Process	Component
B, D, C, A

Primary reference

Structure-Based Design of a Potent, Selective, and Brain Penetrating PDE2 Inhibitor with Demonstrated Target Engagement., Buijnsters P, De Angelis M, Langlois X, Rombouts FJ, Sanderson W, Tresadern G, Ritchie A, Trabanco AA, VanHoof G, Roosbroeck YV, Andres JI, ACS Med Chem Lett. 2014 Jul 22;5(9):1049-53. doi: 10.1021/ml500262u. eCollection , 2014 Sep 11. PMID:25221665

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (226 Kb) [Save to disk]

Biological Unit Coordinates (4d09.pdb1.gz) 59 Kb

Biological Unit Coordinates (4d09.pdb2.gz) 58 Kb

Biological Unit Coordinates (4d09.pdb3.gz) 57 Kb

Biological Unit Coordinates (4d09.pdb4.gz) 57 Kb

LPC: Ligand-Protein Contacts for 4D09

CSU: Contacts of Structural Units for 4D09

Structure Factors (852 Kb)

Retrieve 4D09 in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 4D09 from S2C, [Save to disk]

Re-refined 4d09 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4D09 in 3D

Proteopedia, because life has more than 2D.

On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.

On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4d09] [4d09_A] [4d09_B] [4d09_C] [4d09_D]

SWISS-PROT database:

Domain found in 4D09: [HDc ] by SMART

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