1PKG	Transferase Activator	date	Jun 05, 2003
title	Structure Of A C-Kit Kinase Product Complex
authors	C.D.Mol, K.B.Lim, V.Sridhar, H.Zou, E.Y.T.Chien, B.C.Sang, J.Nowa D.B.Kassel, C.N.Cronin, D.E.Mcree
compound		source
Molecule: C-Kit Protein Chain: A, B Fragment: Catalytic Domain Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_vector_type: Baculovirus Expression_system_vector: Psxb1 (Modified Version Of Pfastb (Invitrogen))
symmetry	Space Group: P 21 21 2	R_factor 0.225 R_Free 0.311
crystal cell	length a length b length c angle alpha angle beta angle gamma 92.667 116.458 60.066 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.90 Å
ligand	ADP, MG, PTR	enzyme
related structures	by homologous chain: 1T45
Primary reference	Structure of a c-kit product complex reveals the basis for kinase transactivation., Mol CD, Lim KB, Sridhar V, Zou H, Chien EY, Sang BC, Nowakowski J, Kassel DB, Cronin CN, McRee DE, J Biol Chem 2003 Aug 22;278(34):31461-4. Epub 2003 Jun 24. PMID:12824176

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (100 Kb) [Save to disk] Biological Unit Coordinates (1pkg.pdb1.gz) 48 Kb Biological Unit Coordinates (1pkg.pdb2.gz) 47 Kb Biological Unit Coordinates (1pkg.pdb3.gz) 182 Kb LPC: Ligand-Protein Contacts for 1PKG CSU: Contacts of Structural Units for 1PKG Likely Quarternary Molecular Structure file(s) for 1PKG Retrieve 1PKG in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1PKG from S2C, [Save to disk]

View 1PKG 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 1PKG

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 1PKG, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1pkga_, region A [Jmol] [rasmolscript] [script source]     - Domain d1pkgb_, region B [Jmol] [rasmolscript] [script source] Fold representative 1pkg 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: [1pkg_A] [1pkg_B] SWISS-PROT database: [P10721] Domain organization of [KIT_HUMAN] by SWISSPFAM Domain found in 1PKG: [TyrKc ] by SMART Alignments of the sequence of 1PKG with the sequences similar proteins can be viewed for 1PKG's classification [KIT_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 [KIT_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 1PKG

Community annotation for 1PKG at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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