4OI0	Rna Binding Protein Rna	date	Jan 18, 2014
title	Bound To Ssrna Dinucleotide Gc, Adp, Alf4-, And Mg2+(Transit Data Set I)
authors	A.Dikfidan, B.Loll, C.Zeymer, T.Clausen, A.Meinhart
compound		source
Molecule: Protein Clpf-1 Chain: A Engineered: Yes		Organism_scientific: Caenorhabditis Elegans Organism_common: Nematode Organism_taxid: 6239 Gene: Clpf-1, F59a2.4 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3)-Ril Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28b
Molecule: Rna (5'-R(Gpc)-3') Chain: B Engineered: Yes Other_details: Diribonucleotide Gc		Synthetic: Yes Other_details: Chemically Synthesized
symmetry	Space Group: P 31	R_factor 0.227 R_Free 0.280
crystal cell	length a length b length c angle alpha angle beta angle gamma 100.710 100.710 40.400 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand	2PE, ADP, ALF, MG, SAR	enzyme
Gene Ontology	Chain Function Process Component A
Primary reference	RNA specificity and regulation of catalysis in the eukaryotic polynucleotide kinase clp1., Dikfidan A, Loll B, Zeymer C, Magler I, Clausen T, Meinhart A, Mol Cell. 2014 Jun 19;54(6):975-86. doi: 10.1016/j.molcel.2014.04.005. Epub 2014 , May 8. PMID:24813946

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (143 Kb) [Save to disk] Biological Unit Coordinates (4oi0.pdb1.gz) 137 Kb LPC: Ligand-Protein Contacts for 4OI0 CSU: Contacts of Structural Units for 4OI0 Structure Factors (428 Kb) Retrieve 4OI0 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 4OI0 from S2C, [Save to disk] Re-refined 4oi0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4OI0 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 4OI0

Cartoon representation from PDB Cartoon 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 Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 4OI0, from MSDmotif at EBI Fold representative 4oi0 from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4oi0_B] [4oi0_A] [4oi0] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 4OI0

Community annotation for 4OI0 at PDBWiki (http://pdbwiki.org)

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