1UPM	Lyase	date	Oct 08, 2003
title	Activated Spinach Rubisco Complexed With 2-Carboxyarabinitol 2 Bisphosphat And Ca2+.
authors	S.Karkehabadi, T.C.Taylor, I.Andersson
compound		source
Molecule: Ribulose Bisphosphate Carboxylase Large Chain Chain: L, B, E, H, K, O, R, V Synonym: Ribulose Bisphosphate Carboxylaseoxygenase, Rubisco Large Subunit; Ec: 4.1.1.39		Organism_scientific: Spinacia Oleracea Organism_common: Spinach Organism_taxid: 3562 Tissue: Leaf
Molecule: Ribulose Bisphosphate Carboxylase Small Chain Chain: S, C, F, I, M, P, T, W Synonym: Ribulose Bisphosphate Carboxylaseoxygenase, Rubisco Small Subunit; Ec: 4.1.1.39 Other_details: The Complete Structure Has Been Submitted As Well As The Matrix Transformation For Each Chain.		Organism_scientific: Spinacia Oleracea Organism_common: Spinach Organism_taxid: 3562 Organ: Leaf
symmetry	Space Group: P 21 21 2	R_factor 0.23 R_Free 0.20
crystal cell	length a length b length c angle alpha angle beta angle gamma 219.600 220.942 116.984 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: 1RBO, 1RCO, 1UWA
Gene Ontology	Chain Function Process Component H, O, R, K, L, E, B, V
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] (817 Kb) [Save to disk] Biological Unit Coordinates (1upm.pdb1.gz) 806 Kb LPC: Ligand-Protein Contacts for 1UPM CSU: Contacts of Structural Units for 1UPM Likely Quarternary Molecular Structure file(s) for 1UPM Structure Factors (2370 Kb) Retrieve 1UPM in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1UPM from S2C, [Save to disk] Re-refined 1upm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1UPM 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 1UPM

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 1UPM, 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: [1upm_L] [1upm] [1upm_W] [1upm_K] [1upm_R] [1upm_F] [1upm_P] [1upm_O] [1upm_S] [1upm_M] [1upm_I] [1upm_B] [1upm_T] [1upm_C] [1upm_H] [1upm_V] [1upm_E] SWISS-PROT database: [P00875] [Q43832] Domain organization of [RBL_SPIOL] [RBS2_SPIOL] by SWISSPFAM Domain found in 1UPM: [RuBisCO_small ] by SMART

Other resources with information on 1UPM

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

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