3K48	Cytokine	date	Oct 05, 2009
title	Crystal Structure Of April Bound To A Peptide
authors	S.G.Hymowitz
compound		source
Molecule: Tumor Necrosis Factor Ligand Superfamily Member 1 Chain: A, B, D Fragment: Residues 104-241 Synonym: A Proliferation-Inducing Ligand, April Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: Mouse Organism_taxid: 10090 Gene: April, Tnfsf 13, Tnfsf13 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Origami (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet-32a
Molecule: Peptide Chain: R, S, T Engineered: Yes		Synthetic: Yes Other_details: Synthetic Peptide
symmetry	Space Group: C 1 2 1	R_factor 0.205 R_Free 0.267
crystal cell	length a length b length c angle alpha angle beta angle gamma 100.811 84.771 55.562 90.00 99.45 90.00
method	X-Ray Diffraction	resolution	2.80 Å
Gene Ontology	Chain Function Process Component A, D, B
Primary reference	Multiple novel classes of APRIL-specific receptor-blocking peptides isolated by phage display., Gordon NC, Lien S, Johnson J, Wallweber HJ, Tran T, Currell B, Mathieu M, Quan C, Starovasnik MA, Hymowitz SG, Kelley RF, J Mol Biol. 2010 Feb 12;396(1):166-77. Epub 2009 Nov 26. PMID:19945466

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk] Biological Unit Coordinates (3k48.pdb1.gz) 72 Kb CSU: Contacts of Structural Units for 3K48 Structure Factors (178 Kb) Retrieve 3K48 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3K48 from S2C, [Save to disk] Re-refined 3k48 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3K48 in 3D

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Visual 3D analysis of 3K48

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 3K48, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3k48] [3k48_S] [3k48_R] [3k48_A] [3k48_D] [3k48_B] [3k48_T] SWISS-PROT database: [Q9D777] Domain organization of [TNF13_MOUSE] by SWISSPFAM Domain found in 3K48: [TNF ] by SMART

Other resources with information on 3K48

Community annotation for 3K48 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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