1G5M Apoptosis date Nov 01, 2000
title Human Bcl-2, Isoform 1
authors A.M.Petros, A.Medek, D.G.Nettesheim, D.H.Kim, H.S.Yoon, K.Swift, E.D.Matayoshi, T.Oltersdorf, S.W.Fesik
compound source
Molecule: Protein (Apoptosis Regulator Bcl-2 With Putative Flexible Loop Replaced With A Portion Of Apoptosis Regulator Bcl-X Protein);
Chain: A
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
methodSolution NMR
related structures by homologous chain: 1G5J, 1GJH
subcellular loc. Membrane localization by OPM: Mitochondrial outer membrane
cytoplasmic side
intermembrane space side
Primary referenceSolution structure of the antiapoptotic protein bcl-2., Petros AM, Medek A, Nettesheim DG, Kim DH, Yoon HS, Swift K, Matayoshi ED, Oltersdorf T, Fesik SW, Proc Natl Acad Sci U S A 2001 Mar 13;98(6):3012-7. PMID:11248023
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (51 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 1G5M
  • Retrieve 1G5M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1G5M from S2C, [Save to disk]
    • View 1G5M 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 1G5M
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1G5M, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1g5ma_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1g5m from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1g5m_A]
  • SWISS-PROT database: [P10415]
  • Domain organization of [BCL2_HUMAN] by SWISSPFAM
  • Domains found in 1G5M: [BCL] [BH4 ] by SMART
  • Alignments of the sequence of 1G5M with the sequences similar proteins can be viewed for 1G5M's classification [BCL2_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 [BCL2_HUMAN] at ProtoMap. Click on the Cluster number.
    • Other resources with information on 1G5M
  • Community annotation for 1G5M 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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