2CDP	Hydrolase	date	Jan 26, 2006
title	Structure Of A Cbm6 In Complex With Neoagarohexaose
authors	J.Henshaw, A.Horne, A.L.Van Bueren, V.A.Money, D.N.Bolam, M.Czjze R.M.Weiner, S.W.Hutcheson, G.J.Davies, A.B.Boraston, H.J.Gilber
compound		source
Molecule: Beta-Agarase 1 Chain: A, B, C, D Fragment: Carbohydrate-Binding Module, Residues 456-593 Engineered: Yes		Organism_scientific: Saccharophagus Degradans Organism_taxid: 203122 Strain: 2-40 Atcc: 43691 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_plasmid: Pet28a Other_details: From The Laboratory Of Ron Weiner
symmetry	Space Group: P 21 21 21	R_factor 0.210 R_Free 0.253
crystal cell	length a length b length c angle alpha angle beta angle gamma 53.720 54.996 195.908 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.59 Å
ligand	AAL, CA, CL, EDO, GAL	enzyme
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Family 6 carbohydrate binding modules in beta-agarases display exquisite selectivity for the non-reducing termini of agarose chains., Henshaw J, Horne-Bitschy A, van Bueren AL, Money VA, Bolam DN, Czjzek M, Ekborg NA, Weiner RM, Hutcheson SW, Davies GJ, Boraston AB, Gilbert HJ, J Biol Chem. 2006 Jun 23;281(25):17099-107. Epub 2006 Apr 6. PMID:16601125

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (106 Kb) [Save to disk] Biological Unit Coordinates (2cdp.pdb1.gz) 27 Kb Biological Unit Coordinates (2cdp.pdb2.gz) 26 Kb Biological Unit Coordinates (2cdp.pdb3.gz) 26 Kb Biological Unit Coordinates (2cdp.pdb4.gz) 27 Kb LPC: Ligand-Protein Contacts for 2CDP CSU: Contacts of Structural Units for 2CDP Likely Quarternary Molecular Structure file(s) for 2CDP Structure Factors (1019 Kb) Retrieve 2CDP in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2CDP from S2C, [Save to disk] Re-refined 2cdp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2CDP 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 2CDP

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 2CDP, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2cdp_C] [2cdp_D] [2cdp] [2cdp_B] [2cdp_A] SWISS-PROT database: [Q6DN99] Domain organization of [Q6DN99_9ALTE] by SWISSPFAM Domain found in 2CDP: [CBD_IV ] by SMART

Other resources with information on 2CDP

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

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