2ZB2	Transferase	date	Oct 15, 2007
title	Human Liver Glycogen Phosphorylase A Complexed With Glcose A Chloro-N-[4-(1,2-Dihydroxyethyl)Phenyl]-1h-Indole-2-Carboxa
authors	N.Katayama, K.Onda
compound		source
Molecule: Glycogen Phosphorylase, Liver Form Chain: A, B Ec: 2.4.1.1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Tissue: Liver Gene: Pygl Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet42b
symmetry	Space Group: P 31	R_factor 0.261 R_Free 0.307
crystal cell	length a length b length c angle alpha angle beta angle gamma 123.819 123.819 123.538 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.45 Å
ligand	A46, GLC, MES, MPD, PLP BindingDB	enzyme	Transferase E.C.2.4.1.1 BRENDA
Gene Ontology	Chain Function Process Component A, B nucleotide binding purine nucleobase binding catalytic activity phosphorylase activity ATP binding glucose binding drug binding glycogen phosphorylase activ... AMP binding transferase activity transferase activity, transf... vitamin binding pyridoxal phosphate binding carbohydrate binding bile acid binding protein homodimerization act... carbohydrate metabolic proce... glycogen metabolic process glycogen catabolic process glucose metabolic process 5-phosphoribose 1-diphosphat... metabolic process glucose homeostasis small molecule metabolic pro... cytoplasm cytosol plasma membrane
Primary reference	Synthesis of 5-chloro-N-aryl-1H-indole-2-carboxamide derivatives as inhibitors of human liver glycogen phosphorylase a., Onda K, Suzuki T, Shiraki R, Yonetoku Y, Negoro K, Momose K, Katayama N, Orita M, Yamaguchi T, Ohta M, Tsukamoto S, Bioorg Med Chem. 2008 May 15;16(10):5452-64. Epub 2008 Apr 11. PMID:18434170

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (274 Kb) [Save to disk] Biological Unit Coordinates (2zb2.pdb1.gz) 268 Kb LPC: Ligand-Protein Contacts for 2ZB2 CSU: Contacts of Structural Units for 2ZB2 Likely Quarternary Molecular Structure file(s) for 2ZB2 Retrieve 2ZB2 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2ZB2 from S2C, [Save to disk]

View 2ZB2 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 2ZB2

Cartoon representation from PDB Cartoon Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 2ZB2, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1e2zb2, region B:169-232 [Jmol] [rasmolscript] [script source]     - Domain d1w2zb2, region B:6-98 [Jmol] [rasmolscript] [script source] Fold representative 2zb2 from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2zb2_A] [2zb2_B] SWISS-PROT database: [P06737] Domain organization of [PYGL_HUMAN] by SWISSPFAM Alignments of the sequence of 2ZB2 with the sequences similar proteins can be viewed for 2ZB2's classification [PYGL_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [PYGL_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 2ZB2

Community annotation for 2ZB2 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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