OCA Atlas for 2Y2B

2Y2B

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

AH0, MHI, ZN

enzyme

Gene
Ontology

Chain	Function	Process	Component
A, C, B

Primary reference

Crystal Structures of Bacterial Peptidoglycan Amidase AmpD and an Unprecedented Activation Mechanism., Carrasco-Lopez C, Rojas-Altuve A, Zhang W, Hesek D, Lee M, Barbe S, Andre I, Ferrer P, Silva-Martin N, Castro GR, Martinez-Ripoll M, Mobashery S, Hermoso JA, J Biol Chem. 2011 Sep 9;286(36):31714-22. Epub 2011 Jul 20. PMID:21775432

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (101 Kb) [Save to disk]

Biological Unit Coordinates (2y2b.pdb1.gz) 35 Kb

Biological Unit Coordinates (2y2b.pdb2.gz) 33 Kb

Biological Unit Coordinates (2y2b.pdb3.gz) 33 Kb

LPC: Ligand-Protein Contacts for 2Y2B

CSU: Contacts of Structural Units for 2Y2B

Structure Factors (614 Kb)

Retrieve 2Y2B in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 2Y2B from S2C, [Save to disk]

Re-refined 2y2b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2Y2B 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: [2y2b] [2y2b_A] [2y2b_B] [2y2b_C]

SWISS-PROT database:

Domain found in 2Y2B: [Ami_2 ] by SMART

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