3NBY	Gtp-Binding Protein Transport Protein	date	Jun 04, 2010
title	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export
authors	T.Guttler, T.Madl, P.Neumann, D.Deichsel, L.Corsini, T.Monecke, R. M.Sattler, D.Gorlich
compound		source
Molecule: Snurportin-1 Chain: B, E Synonym: Rna U Transporter 1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Pkia (Geneid: 5569) Snupn (Geneid: 10073), Rnut1, Snu Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Blr Expression_system_vector_type: Plasmid
Molecule: Gtp-Binding Nuclear Protein Ran Chain: C, F Synonym: Gtpase Ran, Ras-Related Nuclear Protein, Ras-Like Tc4, Androgen Receptor-Associated Protein 24; Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ara24, Oksw-Cl.81, Ran, Ran (Geneid: 5901) Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Blr Expression_system_vector_type: Plasmid
Molecule: Exportin-1 Chain: A, D Synonym: Exp1, Chromosome Region Maintenance 1 Protein Homo Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: Mouse Organism_taxid: 10090 Gene: Crm1, Xpo1, Xpo1 (Geneid: 103573) Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Blr Expression_system_vector_type: Plasmid
symmetry	Space Group: P 1 21 1	R_factor 0.258 R_Free 0.315
crystal cell	length a length b length c angle alpha angle beta angle gamma 72.090 223.726 163.064 90.00 100.63 90.00
method	X-Ray Diffraction	resolution	3.42 Å
ligand	GTP, MG	enzyme
Gene Ontology	Chain Function Process Component A, D RNA binding protein binding protein transporter activity... protein domain specific bind... negative regulation of trans... protein export from nucleus transport regulation of centrosome dup... protein transport protein localization to nucl... regulation of protein catabo... response to drug regulation of protein export... mRNA transport kinetochore nucleus annulate lamellae nucleoplasm nucleolus cytoplasm Cajal body ribonucleoprotein complex E, B RNA cap binding RNA binding spliceosomal snRNP assembly transport gene expression RNA metabolic process ncRNA metabolic process nucleus nuclear pore cytoplasm cytosol F, C nucleotide binding chromatin binding transcription coactivator ac... GTPase activity protein binding GTP binding androgen receptor binding GTP catabolic process DNA metabolic process RNA export from nucleus protein import into nucleus protein export from nucleus transport intracellular protein transp... nucleocytoplasmic transport cell cycle mitotic spindle organization... mitosis signal transduction small GTPase mediated signal... gene expression protein transport viral reproduction virus-host interaction viral infectious cycle viral reproductive process actin cytoskeleton organizat... androgen receptor signaling ... positive regulation of prote... cellular protein localizatio... cellular protein complex loc... small molecule metabolic pro... positive regulation of trans... cell division intracellular transport of v... chromatin nucleus nuclear pore nucleoplasm cytoplasm cytosol melanosome
Primary reference	NES consensus redefined by structures of PKI-type and Rev-type nuclear export signals bound to CRM1., Guttler T, Madl T, Neumann P, Deichsel D, Corsini L, Monecke T, Ficner R, Sattler M, Gorlich D, Nat Struct Mol Biol. 2010 Oct 24. PMID:20972448

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (496 Kb) [Save to disk] Biological Unit Coordinates (3nby.pdb1.gz) 248 Kb Biological Unit Coordinates (3nby.pdb2.gz) 248 Kb LPC: Ligand-Protein Contacts for 3NBY CSU: Contacts of Structural Units for 3NBY Structure Factors (871 Kb) Retrieve 3NBY in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3NBY from S2C, [Save to disk] Re-refined 3nby structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3NBY 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 3NBY

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 3NBY, from MSDmotif at EBI Fold representative 3nby from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3nby_A] [3nby_B] [3nby_C] [3nby_D] [3nby_E] [3nby_F] SWISS-PROT database: Domain organization of by SWISSPFAM Alignments of the sequence of 3NBY with the sequences similar proteins can be viewed for 3NBY's classification 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 at ProtoMap. Click on the Cluster number.

Other resources with information on 3NBY

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

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