1D3C	Transferase	date	Sep 29, 1999
title	Michaelis Complex Of Bacillus Circulans Strain 251 Cyclodext Glycosyltransferase With Gamma-Cyclodextrin
authors	J.C.M.Uitdehaag, K.H.Kalk, B.A.Van Der Veen, L.Dijkhuizen, B.W.D
compound		source
Molecule: Cyclodextrin Glycosyltransferase Chain: A Ec: 2.4.1.19 Engineered: Yes Mutation: Yes		Organism_scientific: Bacillus Circulans Organism_taxid: 1397 Strain: 251 Cellular_location: Extracellular Expression_system: Bacillus Subtilis Expression_system_taxid: 1423 Expression_system_plasmid: Pdp66s
symmetry	Space Group: P 21 21 21	R_factor 0.220 R_Free 0.258
crystal cell	length a length b length c angle alpha angle beta angle gamma 117.791 109.532 65.223 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.78 Å
ligand	CA, GLC, MPD	enzyme	Transferase E.C.2.4.1.19 BRENDA
related structures	by homologous chain: 1PAM
Gene Ontology	Chain Function Process Component A
Primary reference	The cyclization mechanism of cyclodextrin glycosyltransferase (CGTase) as revealed by a gamma-cyclodextrin-CGTase complex at 1.8-A resolution., Uitdehaag JC, Kalk KH, van Der Veen BA, Dijkhuizen L, Dijkstra BW, J Biol Chem 1999 Dec 3;274(49):34868-76. PMID:10574960

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (130 Kb) [Save to disk] Biological Unit Coordinates (1d3c.pdb1.gz) 124 Kb LPC: Ligand-Protein Contacts for 1D3C CSU: Contacts of Structural Units for 1D3C Likely Quarternary Molecular Structure file(s) for 1D3C Structure Factors (551 Kb) Retrieve 1D3C in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1D3C from S2C, [Save to disk] Re-refined 1d3c structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1D3C 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 1D3C

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 1D3C, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1d3ca4, region A:1-406 [Jmol] [rasmolscript] [script source]     - Domain d1d3ca3, region A:407-496 [Jmol] [rasmolscript] [script source]     - Domain d1d3ca1, region A:497-583 [Jmol] [rasmolscript] [script source]     - Domain d1d3ca2, region A:584-686 [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1d3c] [1d3c_A] SWISS-PROT database: [P43379] Domain organization of [CDGT2_BACCI] by SWISSPFAM Domains found in 1D3C: [Aamy] [Aamy_C] [CBM_2 ] by SMART

Other resources with information on 1D3C

Community annotation for 1D3C at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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