1R1Z	Sugar Binding Protein	date	Sep 25, 2003
title	The Crystal Structure Of The Carbohydrate Recognition Domain Glycoprotein Sorting Receptor P58ergic-53 Reveals A Novel Binding Site And Conformational Changes Associated With Cal Binding
authors	L.M.Velloso, K.Svensson, R.F.Pettersson, Y.Lindqvist
compound		source
Molecule: Ergic-53 Protein Chain: A, B, C, D Synonym: Er-Golgi Intermediate Compartment 53 Kda Protein, Mannose-Binding 1, P58; Engineered: Yes		Organism_scientific: Rattus Norvegicus Organism_common: Norway Rat Organism_taxid: 10116 Gene: Lman1 Or Ergic53 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_cell_line: Sf9 Expression_system_vector_type: Baculovirus Expression_system_plasmid: Pfastbac
symmetry	Space Group: P 1	R_factor 0.223 R_Free 0.241
crystal cell	length a length b length c angle alpha angle beta angle gamma 44.351 81.068 82.306 91.05 94.14 94.99
method	X-Ray Diffraction	resolution	2.40 Å
ligand	CA	enzyme
related structures	by homologous chain: 1GV9
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	The crystal structure of the carbohydrate-recognition domain of the glycoprotein sorting receptor p58/ERGIC-53 reveals an unpredicted metal-binding site and conformational changes associated with calcium ion binding., Velloso LM, Svensson K, Pettersson RF, Lindqvist Y, J Mol Biol 2003 Dec 12;334(5):845-51. PMID:14643651

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (160 Kb) [Save to disk] Biological Unit Coordinates (1r1z.pdb1.gz) 42 Kb Biological Unit Coordinates (1r1z.pdb2.gz) 41 Kb Biological Unit Coordinates (1r1z.pdb3.gz) 41 Kb Biological Unit Coordinates (1r1z.pdb4.gz) 40 Kb LPC: Ligand-Protein Contacts for 1R1Z CSU: Contacts of Structural Units for 1R1Z Likely Quarternary Molecular Structure file(s) for 1R1Z Structure Factors (616 Kb) Retrieve 1R1Z in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1R1Z from S2C, [Save to disk] Re-refined 1r1z structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1R1Z 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 1R1Z

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1R1Z, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1r1za_, region A [Jmol] [rasmolscript] [script source]     - Domain d1r1zb_, region B [Jmol] [rasmolscript] [script source]     - Domain d1r1zc_, region C [Jmol] [rasmolscript] [script source]     - Domain d1r1zd_, region D [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: [1r1z_D] [1r1z_C] [1r1z_B] [1r1z] [1r1z_A] SWISS-PROT database: [Q62902] Domain organization of [LMAN1_RAT] by SWISSPFAM

Other resources with information on 1R1Z

Community annotation for 1R1Z at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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