2QU5	Transferase	date	Aug 03, 2007
title	Crystal Structure Of The Vegfr2 Kinase Domain In Complex Wit Benzimidazole Inhibitor
authors	D.A.Whittington, J.L.Kim, A.M.Long, P.Rose, Y.Gu, H.Zhao
compound		source
Molecule: Vascular Endothelial Growth Factor Receptor 2 Chain: A Fragment: Kinase Domain Synonym: Vegfr-2, Kinase Insert Domain Receptor, Protein-Ty Kinase Receptor Flk-1, Cd309 Antigen; Ec: 2.7.10.1 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Kdr, Flk1 Expression_system: Trichoplusia Ni Expression_system_common: Cabbage Looper Expression_system_taxid: 7111 Expression_system_vector_type: Baculovirus
symmetry	Space Group: P 21 21 2	R_factor 0.213 R_Free 0.251
crystal cell	length a length b length c angle alpha angle beta angle gamma 66.852 143.828 58.483 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.95 Å
ligand	276 BindingDB	enzyme	Transferase E.C.2.7.10.1 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Design, Synthesis, and Evaluation of Orally Active Benzimidazoles and Benzoxazoles as Vascular Endothelial Growth Factor-2 Receptor Tyrosine Kinase Inhibitors., Potashman MH, Bready J, Coxon A, Demelfi TM Jr, Dipietro L, Doerr N, Elbaum D, Estrada J, Gallant P, Germain J, Gu Y, Harmange JC, Kaufman SA, Kendall R, Kim JL, Kumar GN, Long AM, Neervannan S, Patel VF, Polverino A, Rose P, Plas SV, Whittington D, Zanon R, Zhao H, J Med Chem. 2007 Sep 6;50(18):4351-4373. Epub 2007 Aug 15. PMID:17696416

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (53 Kb) [Save to disk] Biological Unit Coordinates (2qu5.pdb1.gz) 49 Kb LPC: Ligand-Protein Contacts for 2QU5 CSU: Contacts of Structural Units for 2QU5 Likely Quarternary Molecular Structure file(s) for 2QU5 Structure Factors (98 Kb) Retrieve 2QU5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2QU5 from S2C, [Save to disk] Re-refined 2qu5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2QU5 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 2QU5

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 2QU5, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2qu5] [2qu5_A] SWISS-PROT database: [P35968] Domain organization of [VGFR2_HUMAN] by SWISSPFAM Domain found in 2QU5: [TyrKc ] by SMART

Other resources with information on 2QU5

Community annotation for 2QU5 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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