1PFM	Cytokine	date	Jul 18, 1995
title	Pf4-M2 Chimeric Mutant With The First 10 N-Terminal Residues Of R-Pf4 Replaced By The N-Terminal Residues Of The Il8 Sequence. Models 1-15 Of A 27-Model Set.
authors	K.H.Mayo, V.Roongta, E.Ilyina, R.Milius, S.Barker, C.Quinlan, G.La Rosa, T.J.Daly
compound		source
Molecule: Pf4-M2 Chimera Chain: A, B, C, D Synonym: Platelet Factor 4, Platelet Factor M2 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Cell_line: Bl21 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_plasmid: Bl21
method	Solution NMR
related structures	by homologous chain: 1PFN
Gene Ontology	Chain Function Process Component A, D, C, B cytokine activity chemokine activity heparin binding platelet degranulation chemotaxis blood coagulation positive regulation of gene ... positive regulation of macro... negative regulation of angio... cytokine-mediated signaling ... platelet activation leukocyte chemotaxis positive regulation of tumor... negative regulation of MHC c... positive regulation of macro... negative regulation of megak... negative regulation of cytol... negative regulation of extri... extracellular region extracellular space platelet alpha granule lumen...
Primary reference	NMR solution structure of the 32-kDa platelet factor 4 ELR-motif N-terminal chimera: a symmetric tetramer., Mayo KH, Roongta V, Ilyina E, Milius R, Barker S, Quinlan C, La Rosa G, Daly TJ, Biochemistry 1995 Sep 12;34(36):11399-409. PMID:7547867

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1329 Kb) [Save to disk] CSU: Contacts of Structural Units for 1PFM Original NMR restraints for 1PFM from PDB Retrieve 1PFM in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1PFM from S2C, [Save to disk]

View 1PFM 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 1PFM

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 1PFM, from MSDmotif at EBI Genome occurence of 1PFM's fold from GeneCensus Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1pfma_, region A [Jmol] [rasmolscript] [script source]     - Domain d1pfmb_, region B [Jmol] [rasmolscript] [script source]     - Domain d1pfmc_, region C [Jmol] [rasmolscript] [script source]     - Domain d1pfmd_, region D [Jmol] [rasmolscript] [script source] Fold representative 1pfm 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: [1pfm_A] [1pfm_B] [1pfm_C] [1pfm_D] SWISS-PROT database: [P02776] Domain organization of [PLF4_HUMAN] by SWISSPFAM Domain found in 1PFM: [SCY ] by SMART Alignments of the sequence of 1PFM with the sequences similar proteins can be viewed for 1PFM's classification [PLF4_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 [PLF4_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 1PFM

Community annotation for 1PFM at PDBWiki (http://pdbwiki.org) NMR Ensemble (OLDERADO: core, domain and representative structure database) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Domain movements in 1PFM from the Database of Macromolecular Movements. Images from IMB Jena Image Library of Biological Macromolecules.

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