OCA Atlas for 4OXD

4OXD

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

CL, DSG, LYS, MG, MUB, ZGL, ZN

enzyme

Gene
Ontology

Chain	Function	Process	Component
E, D, C, A, B

Primary reference

Structure of the LdcB LD-Carboxypeptidase Reveals the Molecular Basis of Peptidoglycan Recognition., Hoyland CN, Aldridge C, Cleverley RM, Duchene MC, Minasov G, Onopriyenko O, Sidiq K, Stogios PJ, Anderson WF, Daniel RA, Savchenko A, Vollmer W, Lewis RJ, Structure. 2014 Jun 4. pii: S0969-2126(14)00139-7. doi:, 10.1016/j.str.2014.04.015. PMID:24909784

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (150 Kb) [Save to disk]

Biological Unit Coordinates (4oxd.pdb1.gz) 34 Kb

Biological Unit Coordinates (4oxd.pdb2.gz) 32 Kb

Biological Unit Coordinates (4oxd.pdb3.gz) 30 Kb

Biological Unit Coordinates (4oxd.pdb4.gz) 30 Kb

Biological Unit Coordinates (4oxd.pdb5.gz) 31 Kb

LPC: Ligand-Protein Contacts for 4OXD

CSU: Contacts of Structural Units for 4OXD

Structure Factors (1525 Kb)

Retrieve 4OXD in mmCIF format [Save to disk]

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

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

View 4OXD 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: [4oxd] [4oxd_A] [4oxd_B] [4oxd_C] [4oxd_D] [4oxd_E] [4oxd_H]

SWISS-PROT database:

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