3GEF Structural Protein date Feb 25, 2009
title Crystal Structure Of The R482w Mutant Of Lamin Ac
authors E.Magracheva, S.Kozlov, C.Stuart, A.Wlodawer, A.Zdanov
compound source
Molecule: Lamin-Ac
Chain: A, B, C, D
Fragment: Lamin Ac Globular Domain
Synonym: 70 Kda Lamin, Renal Carcinoma Antigen Ny-Ren-32
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Lamin Ac 435-552, Lmn1, Lmna
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet41a
symmetry Space Group: P 21 21 21
R_factor 0.214 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
62.195 84.035 98.750 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.50 Å
ligand CSW enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceStructure of the lamin A/C R482W mutant responsible for dominant familial partial lipodystrophy (FPLD)., Magracheva E, Kozlov S, Stewart CL, Wlodawer A, Zdanov A, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2009 Jul 1;65(Pt, 7):665-70. Epub 2009 Jun 27. PMID:19574635
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (85 Kb) [Save to disk]
  • Biological Unit Coordinates (3gef.pdb1.gz) 22 Kb
  • Biological Unit Coordinates (3gef.pdb2.gz) 22 Kb
  • Biological Unit Coordinates (3gef.pdb3.gz) 22 Kb
  • Biological Unit Coordinates (3gef.pdb4.gz) 21 Kb
  • LPC: Ligand-Protein Contacts for 3GEF
  • CSU: Contacts of Structural Units for 3GEF
  • Structure Factors (912 Kb)
  • Retrieve 3GEF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3GEF from S2C, [Save to disk]
  • Re-refined 3gef structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3GEF 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 3GEF
  • 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 3GEF, from MSDmotif at EBI
  • Fold representative 3gef from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3gef_D] [3gef_A] [3gef_B] [3gef] [3gef_C]
  • SWISS-PROT database: [P02545]
  • Domain organization of [LMNA_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 3GEF with the sequences similar proteins can be viewed for 3GEF's classification [LMNA_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 [LMNA_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3GEF
  • Community annotation for 3GEF 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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