2ZYK	Sugar Binding Protein	date	Jan 26, 2009
title	Crystal Structure Of Cyclomaltodextrin-Binding Protein Comp Gamma-Cyclodextrin
authors	T.Tonozuka, A.Sogawa, M.Yamada, N.Matsumoto, H.Yoshida, S.Kamitor K.Ichikawa, M.Mizuno, A.Nishikawa, Y.Sakano
compound		source
Molecule: Solute-Binding Protein Chain: A, B, C, D Fragment: Residues 1-397 Synonym: Cyclodextrin-Binding Protein Engineered: Yes		Organism_scientific: Thermoactinomyces Vulgaris Organism_taxid: 2026 Strain: R-47 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Petcbp
symmetry	Space Group: C 1 2 1	R_factor 0.222 R_Free 0.285
crystal cell	length a length b length c angle alpha angle beta angle gamma 167.399 95.270 117.130 90.00 131.56 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	GLC	enzyme
note	2ZYK supersedes 2DFZ
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Structural basis for cyclodextrin recognition by Thermoactinomyces vulgaris cyclo/maltodextrin-binding protein., Tonozuka T, Sogawa A, Yamada M, Matsumoto N, Yoshida H, Kamitori S, Ichikawa K, Mizuno M, Nishikawa A, Sakano Y, FEBS J. 2007 Apr;274(8):2109-20. Epub 2007 Mar 20. PMID:17371546

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (259 Kb) [Save to disk] Biological Unit Coordinates (2zyk.pdb1.gz) 66 Kb Biological Unit Coordinates (2zyk.pdb2.gz) 65 Kb Biological Unit Coordinates (2zyk.pdb3.gz) 66 Kb Biological Unit Coordinates (2zyk.pdb4.gz) 66 Kb LPC: Ligand-Protein Contacts for 2ZYK CSU: Contacts of Structural Units for 2ZYK Likely Quarternary Molecular Structure file(s) for 2ZYK Structure Factors (416 Kb) Retrieve 2ZYK in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2ZYK from S2C, [Save to disk] Re-refined 2zyk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2ZYK 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.

Visual 3D analysis of 2ZYK

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2ZYK, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2zyk_B] [2zyk_C] [2zyk] [2zyk_D] [2zyk_A] SWISS-PROT database: [Q9AJF5] Domain organization of [Q9AJF5_THEVU] by SWISSPFAM

Other resources with information on 2ZYK

Community annotation for 2ZYK at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---