2P1H Apoptosis date Mar 05, 2007
title Rapid Folding And Unfolding Of Apaf-1 Card
authors S.L.Milam, N.I.Nicely, B.Feeney, C.Mattos, A.C.Clark
compound source
Molecule: Apoptotic Protease-Activating Factor 1
Chain: A
Fragment: Card Domain (Residues 1-92)
Synonym: Apaf-1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Apaf1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3) Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Papaf-1card+Gs
symmetry Space Group: P 21 21 21
R_factor 0.239 R_Free 0.297
crystal
cell
length a length b length c angle alpha angle beta angle gamma
33.468 47.515 54.746 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.59 Å
ligand ZN enzyme
note 2P1H (Molecule of the Month:pdb177)
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceRapid Folding and Unfolding of Apaf-1 CARD., Milam SL, Nicely NI, Feeney B, Mattos C, Clark AC, J Mol Biol. 2007 May 25;369(1):290-304. Epub 2007 Mar 15. PMID:17408690
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (21 Kb) [Save to disk]
  • Biological Unit Coordinates (2p1h.pdb1.gz) 17 Kb
  • LPC: Ligand-Protein Contacts for 2P1H
  • CSU: Contacts of Structural Units for 2P1H
  • Likely Quarternary Molecular Structure file(s) for 2P1H
  • Structure Factors (129 Kb)
  • Retrieve 2P1H in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2P1H from S2C, [Save to disk]
  • Re-refined 2p1h structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2P1H 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 2P1H
  • 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 2P1H, from MSDmotif at EBI
  • Fold representative 2p1h from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2p1h] [2p1h_A]
  • SWISS-PROT database: [O14727]
  • Domain organization of [APAF_HUMAN] by SWISSPFAM
  • Other resources with information on 2P1H
  • Community annotation for 2P1H 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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