OCA Atlas for 4AYD

4AYD

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

EDO

enzyme

Primary reference

Design and Evaluation of Meningococcal Vaccines through Structure-Based Modification of Host and Pathogen Molecules., Johnson S, Tan L, van der Veen S, Caesar J, Goicoechea De Jorge E, Harding RJ, Bai X, Exley RM, Ward PN, Ruivo N, Trivedi K, Cumber E, Jones R, Newham L, Staunton D, Ufret-Vincenty R, Borrow R, Pickering MC, Lea SM, Tang CM, PLoS Pathog. 2012 Oct;8(10):e1002981. doi: 10.1371/journal.ppat.1002981. Epub, 2012 Oct 25. PMID:23133374

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (189 Kb) [Save to disk]

Biological Unit Coordinates (4ayd.pdb1.gz) 65 Kb

Biological Unit Coordinates (4ayd.pdb2.gz) 63 Kb

Biological Unit Coordinates (4ayd.pdb3.gz) 64 Kb

LPC: Ligand-Protein Contacts for 4AYD

CSU: Contacts of Structural Units for 4AYD

Structure Factors (332 Kb)

Retrieve 4AYD in mmCIF format [Save to disk]

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

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

View 4AYD 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: [4ayd] [4ayd_A] [4ayd_B] [4ayd_C] [4ayd_D] [4ayd_E] [4ayd_F]

SWISS-PROT database:

Domain found in 4AYD: [CCP ] by SMART

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