3S1K	Signaling Protein	date	May 15, 2011
title	The Development Of Peptide-Based Tools For The Analysis Of Angiogenesis
authors	J.M.Murray, C.Wiesmann
compound		source
Molecule: Z-Domain Chain: A, B Engineered: Yes		Synthetic: Yes Other_details: Fmoc Solid-Phase Peptide Synthesis
Molecule: Vascular Endothelial Growth Factor A Chain: V, W Synonym: Vegf-A, Vascular Permeability Factor, Vpf Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Vegf Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid
symmetry	Space Group: P 21 21 21	R_factor 0.227 R_Free 0.271
crystal cell	length a length b length c angle alpha angle beta angle gamma 69.228 72.760 76.344 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.55 Å
Gene Ontology	Chain Function Process Component W, V
Primary reference	The development of Peptide-based tools for the analysis of angiogenesis., Fedorova A, Zobel K, Gill HS, Ogasawara A, Flores JE, Tinianow JN, Vanderbilt AN, Wu P, Meng YG, Williams SP, Wiesmann C, Murray J, Marik J, Deshayes K, Chem Biol. 2011 Jul 29;18(7):839-45. PMID:21802005

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (108 Kb) [Save to disk] Biological Unit Coordinates (3s1k.pdb1.gz) 101 Kb CSU: Contacts of Structural Units for 3S1K Structure Factors (198 Kb) Retrieve 3S1K in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3S1K from S2C, [Save to disk] Re-refined 3s1k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3S1K 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 3S1K

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 3S1K, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3s1k] [3s1k_B] [3s1k_V] [3s1k_W] [3s1k_A] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 3S1K: [PDGF ] by SMART

Other resources with information on 3S1K

Community annotation for 3S1K at PDBWiki (http://pdbwiki.org)

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