2VGH	Growth Factor	date	Dec 17, 1997
title	Heparin-Binding Domain From Vascular Endothelial Growth Factor, Nmr, Minimized Average Structure
authors	W.J.Fairbrother, M.A.Champe, H.W.Christinger, B.A.Keyt, M.A.Starovasnik
compound		source
Molecule: Vascular Endothelial Growth Factor-165 Chain: A Fragment: Heparin-Binding Domain Synonym: Vegf-165 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562
method	Solution NMR
note	2VGH is a representative structure
Primary reference	Solution structure of the heparin-binding domain of vascular endothelial growth factor., Fairbrother WJ, Champe MA, Christinger HW, Keyt BA, Starovasnik MA, Structure 1998 May 15;6(5):637-48. PMID:9634701

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (17 Kb) [Save to disk] CSU: Contacts of Structural Units for 2VGH Experimental data, such as chemical shifts, at BioMagResBank (BMRB) NMR Restraints Grid from BioMagResBank (BMRB) Retrieve 2VGH in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2VGH from S2C, [Save to disk]

View 2VGH 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 2VGH

Cartoon representation from PDB Cartoon Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 2VGH, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d2vgh__, region [Jmol] [rasmolscript] [script source] Fold representative 2vgh from FSSP and Dali (Families of Structurally Similar Proteins) 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: [2vgh_A] SWISS-PROT database: [P15692] Domain organization of [VEGFA_HUMAN] by SWISSPFAM Alignments of the sequence of 2VGH with the sequences similar proteins can be viewed for 2VGH's classification [VEGFA_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [VEGFA_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 2VGH

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

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