3PKN	Protein Binding	date	Nov 11, 2010
title	Crystal Structure Of Mlle Domain Of Poly(A) Binding Protein With Pam2 Motif Of La-Related Protein 4 (Larp4)
authors	J.Xie, G.Kozlov, K.Gehring
compound		source
Molecule: Polyadenylate-Binding Protein 1 Chain: A Fragment: Mlle Domain (Unp Residues 544-626) Synonym: Pabp-1, Poly(A)-Binding Protein 1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Pabpc1, Pab1, Pabp1, Pabpc2 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex 6p1
Molecule: La-Related Protein 4 Chain: B Fragment: Pabp-Binding Region (Unp Residues 13-26) Synonym: La Ribonucleoprotein Domain Family Member 4 Engineered: Yes		Synthetic: Yes Other_details: Chemically Synthesized Peptide
symmetry	Space Group: C 1 2 1	R_factor 0.225 R_Free 0.269
crystal cell	length a length b length c angle alpha angle beta angle gamma 48.910 31.384 52.647 90.00 104.95 90.00
method	X-Ray Diffraction	resolution	1.80 Å
ligand	IOD, SO4	enzyme
Gene Ontology	Chain Function Process Component A
Primary reference	LARP4 binds poly(A), interacts with poly(A)-binding protein MLLE domain via a variant PAM2w motif and can promote mRNA stability., Yang R, Gaidamakov SA, Xie J, Lee J, Martino L, Kozlov G, Crawford AK, Russo AN, Conte MR, Gehring K, Maraia RJ, Mol Cell Biol. 2010 Nov 22. PMID:21098120

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (35 Kb) [Save to disk] Biological Unit Coordinates (3pkn.pdb1.gz) 30 Kb Biological Unit Coordinates (3pkn.pdb2.gz) 58 Kb LPC: Ligand-Protein Contacts for 3PKN CSU: Contacts of Structural Units for 3PKN Structure Factors (106 Kb) Retrieve 3PKN in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3PKN from S2C, [Save to disk] Re-refined 3pkn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3PKN 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 3PKN

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 3PKN, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3pkn_A] [3pkn_B] [3pkn] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 3PKN: [PolyA ] by SMART

Other resources with information on 3PKN

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

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