3CPF Cell Cycle date Mar 31, 2008
title Crystal Structure Of Human Eukaryotic Translation Initiation Eif5a
authors L.Nedyalkova, Y.Tong, W.Tempel, B.Hong, F.Mackenzie, C.H.Arrowsmi A.M.Edwards, C.Bountra, J.Weigelt, A.Bochkarev, H.Park, Structur Genomics Consortium (Sgc)
compound source
Molecule: Eukaryotic Translation Initiation Factor 5a-1
Chain: A, B
Fragment: Residues 15-151
Synonym: Eif-5a-1, Eif-5a1, Eukaryotic Initiation Factor 5a 1, Eif-5a, Eif-4d, Rev-Binding Factor;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Eif5a
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-Codonplus(De3)-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28-Mhl
symmetry Space Group: P 41 21 2
R_factor 0.244 R_Free 0.300
crystal
cell
length a length b length c angle alpha angle beta angle gamma
76.119 76.119 107.752 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand UNX enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal structure of human eIF5A1: insight into functional similarity of human eIF5A1 and eIF5A2., Tong Y, Park I, Hong BS, Nedyalkova L, Tempel W, Park HW, Proteins. 2009 Jun;75(4):1040-5. PMID:19280598
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (45 Kb) [Save to disk]
  • Biological Unit Coordinates (3cpf.pdb1.gz) 21 Kb
  • Biological Unit Coordinates (3cpf.pdb2.gz) 19 Kb
  • LPC: Ligand-Protein Contacts for 3CPF
  • CSU: Contacts of Structural Units for 3CPF
  • Likely Quarternary Molecular Structure file(s) for 3CPF
  • Structure Factors (173 Kb)
  • Retrieve 3CPF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3CPF from S2C, [Save to disk]
  • Re-refined 3cpf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3CPF 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 3CPF
  • 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 3CPF, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3cpf] [3cpf_B] [3cpf_A]
  • SWISS-PROT database: [P63241]
  • Belongs to the eukaryotic nuclear pore complex (e-npc) family according to TCDB.
  • Domain organization of [IF5A1_HUMAN] by SWISSPFAM
  • Domain found in 3CPF: [eIF-5a ] by SMART
  • Other resources with information on 3CPF
  • Community annotation for 3CPF at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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