1PZ5	Immune System	date	Jul 09, 2003
title	Structural Basis Of Peptide-Carbohydrate Mimicry In An Antib Combining Site
authors	N.K.Vyas, M.N.Vyas, M.C.Chervenak, D.R.Bundle, B.M.Pinto, F.A.Qui
compound		source
Molecule: Light Chain Of Fab (Syaj6) Chain: A		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Strain: Balbc Organ: Spleen
Molecule: Heavy Chain Of Fab (Syaj6) Chain: B		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Strain: Balbc Organ: Spleen
Molecule: Octapeptide (Mdwnmhaa) Chain: C Engineered: Yes		Synthetic: Yes Other_details: The Octapeptide Was Synthesized As Its Carbo (Alberta Peptide Institure, Edmonton, Canada)
symmetry	Space Group: P 43 21 2	R_factor 0.219 R_Free 0.254
crystal cell	length a length b length c angle alpha angle beta angle gamma 69.310 69.310 198.560 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.80 Å
related structures	by homologous chain: 1E6O, 1NBY, 1UZ8
Gene Ontology	Chain Function Process Component A B
Primary reference	Structural basis of peptide-carbohydrate mimicry in an antibody-combining site., Vyas NK, Vyas MN, Chervenak MC, Bundle DR, Pinto BM, Quiocho FA, Proc Natl Acad Sci U S A 2003 Dec 9;100(25):15023-8. Epub 2003 Nov 25. PMID:14645714

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (81 Kb) [Save to disk] Biological Unit Coordinates (1pz5.pdb1.gz) 77 Kb CSU: Contacts of Structural Units for 1PZ5 Likely Quarternary Molecular Structure file(s) for 1PZ5 Retrieve 1PZ5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1PZ5 from S2C, [Save to disk]

View 1PZ5 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 1PZ5

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1PZ5, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1pz5a1, region A:1-107 [Jmol] [rasmolscript] [script source]     - Domain d1pz5a2, region A:108-211 [Jmol] [rasmolscript] [script source]     - Domain d1pz5b1, region B:1-113 [Jmol] [rasmolscript] [script source]     - Domain d1pz5b2, region B:114-213 [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: [1pz5_C] [1pz5_B] [1pz5_A] [1pz5] SWISS-PROT database: [P01801] Domain organization of [HVM32_MOUSE] by SWISSPFAM Domains found in 1PZ5: [IG_like] [IGv ] by SMART

Other resources with information on 1PZ5

Community annotation for 1PZ5 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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