3CJF	Transferase	date	Mar 12, 2008
title	Crystal Structure Of Vegfr2 In Complex With A 3,4,5-Trimetho Containing Pyrimidine
authors	R.T.Nolte
compound		source
Molecule: Vascular Endothelial Growth Factor Receptor 2 Chain: A Fragment: Kinase Domain; Residues 806-939 And 994-1168 Synonym: Vegfr-2, Kinase Insert Domain Receptor, Protein-Ty Kinase Receptor Flk-1, Cd309 Antigen; Ec: 2.7.10.1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Gene: Kdr, Flk1 Expression_system: Spodoptera Frugiperda Expression_system_vector_type: Baculovirus Other_details: Kid Insert Removed
symmetry	Space Group: P 21 21 21	R_factor 0.204 R_Free 0.258
crystal cell	length a length b length c angle alpha angle beta angle gamma 37.435 94.742 96.797 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.15 Å
ligand	CSO, SAV, SO4 BindingDB	enzyme	Transferase E.C.2.7.10.1 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Discovery of 5-[[4-[(2,3-dimethyl-2H-indazol-6-yl)methylamino]-2-pyrimidinyl]amino]-2-m ethyl-benzenesulfonamide (Pazopanib), a novel and potent vascular endothelial growth factor receptor inhibitor., Harris PA, Boloor A, Cheung M, Kumar R, Crosby RM, Davis-Ward RG, Epperly AH, Hinkle KW, Hunter RN 3rd, Johnson JH, Knick VB, Laudeman CP, Luttrell DK, Mook RA, Nolte RT, Rudolph SK, Szewczyk JR, Truesdale AT, Veal JM, Wang L, Stafford JA, J Med Chem. 2008 Aug 14;51(15):4632-40. Epub 2008 Jul 12. PMID:18620382

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (55 Kb) [Save to disk] Biological Unit Coordinates (3cjf.pdb1.gz) 49 Kb LPC: Ligand-Protein Contacts for 3CJF CSU: Contacts of Structural Units for 3CJF Likely Quarternary Molecular Structure file(s) for 3CJF Structure Factors (139 Kb) Retrieve 3CJF in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3CJF from S2C, [Save to disk] Re-refined 3cjf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3CJF 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 3CJF

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 3CJF, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3cjf_A] [3cjf] SWISS-PROT database: [P35968] Domain organization of [VGFR2_HUMAN] by SWISSPFAM Domain found in 3CJF: [TyrKc ] by SMART

Other resources with information on 3CJF

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

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