1UPP	Lyase	date	Oct 09, 2003
title	Spinach Rubisco In Complex With 2-Carboxyarabinitol 2 Bisphosphate And Calcium.
authors	S.Karkehabadi, T.C.Taylor, I.Andersson
compound		source
Molecule: Ribulose Bisphosphate Carboxylase Large Chain Chain: A, C, E, G Synonym: Ribulose Bisphosphate Carboxylaseoxygenase, Rubisco Large Subunit; Ec: 4.1.1.39		Organism_scientific: Spinacia Oleracea Organism_common: Spinach Organism_taxid: 3562 Organ: Leaf
Molecule: Ribulose Bisphosphate Carboxylase Small Chain Chain: I, J, K, L Synonym: Ribulose Bisphosphate Carboxylaseoxygenase, Rubisco Small Subunit; Ec: 4.1.1.39 Other_details: This Is The Second Structure Of This Complex That Is Being Submitted. The Prevous Structure, Pdb Id Code 1upm, Was Obtained From A Crystal Of Rubisco-Ca Coocrystallized With 2-Cabp Wheras This Structure Is From A Rubisco-Ca3pga Crystal Which Was Soaked With 2-Cabp		Organism_scientific: Spinacia Oleracea Organism_common: Spinach Organism_taxid: 3562 Organ: Leaf
symmetry	Space Group: C 2 2 21	R_factor 0.25598 R_Free 0.30710
crystal cell	length a length b length c angle alpha angle beta angle gamma 155.880 156.250 199.750 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.3 Å
ligand	CA, CAP, KCX	enzyme	Lyase E.C.4.1.1.39 BRENDA
related structures	by homologous chain: 1RCO, 1RSC, 1UZD
Gene Ontology	Chain Function Process Component A, C, G, E
Primary reference	Calcium supports loop closure but not catalysis in Rubisco., Karkehabadi S, Taylor TC, Andersson I, J Mol Biol. 2003 Nov 14;334(1):65-73. PMID:14596800

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (399 Kb) [Save to disk] Biological Unit Coordinates (1upp.pdb1.gz) 775 Kb LPC: Ligand-Protein Contacts for 1UPP CSU: Contacts of Structural Units for 1UPP Likely Quarternary Molecular Structure file(s) for 1UPP Structure Factors (1127 Kb) Retrieve 1UPP in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1UPP from S2C, [Save to disk] Re-refined 1upp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1UPP 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 1UPP

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 1UPP, from MSDmotif at EBI 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: [1upp_E] [1upp_A] [1upp_J] [1upp_C] [1upp] [1upp_K] [1upp_G] [1upp_I] [1upp_L] SWISS-PROT database: [P00875] [Q43832] Domain organization of [RBL_SPIOL] [RBS2_SPIOL] by SWISSPFAM Domain found in 1UPP: [RuBisCO_small ] by SMART

Other resources with information on 1UPP

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

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