3GCI Hydrolase date Feb 22, 2009
title Crystal Structure Of The Complex Formed Between A New Isofor Phospholipase A2 With C-Terminal Amyloid Beta Heptapeptide Resolution
authors Z.Mirza, G.Vikram, N.Singh, M.Sinha, A.Bhushan, S.Sharma, A.Sriniv P.Kaur, T.P.Singh
compound source
Molecule: Phospholipase A2 Isoform 3
Chain: A
Synonym: Phosphatidylcholine 2-Acylhydrolase
Ec: 3.1.1.4
Organism_scientific: Naja Sagittifera
Organism_common: Andaman Cobra
Organism_taxid: 195058

Molecule: Heptapeptide From Amyloid Beta A4 Protein
Chain: P
Fragment: Unp Residues 707-713
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: This Peptide Was Chemically Synthesized. Thi Sequence Occurs Naturally In Humans.
symmetry Space Group: P 41
R_factor 0.184 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
42.679 42.679 65.817 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.04 Å
ligand CA enzyme Hydrolase E.C.3.1.1.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (26 Kb) [Save to disk]
  • Biological Unit Coordinates (3gci.pdb1.gz) 22 Kb
  • LPC: Ligand-Protein Contacts for 3GCI
  • CSU: Contacts of Structural Units for 3GCI
  • Likely Quarternary Molecular Structure file(s) for 3GCI
  • Structure Factors (99 Kb)
  • Retrieve 3GCI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3GCI from S2C, [Save to disk]
  • Re-refined 3gci structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3GCI 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 3GCI
  • 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 3GCI, from MSDmotif at EBI
  • Fold representative 3gci from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3gci] [3gci_P] [3gci_A]
  • SWISS-PROT database: [P05067] [P60045]
  • Belongs to the amyloid -protein peptide (app) family according to TCDB.
  • Domain organization of [A4_HUMAN] [PA23_NAJSG] by SWISSPFAM
  • Domain found in 3GCI: [PA2c ] by SMART
  • Alignments of the sequence of 3GCI with the sequences similar proteins can be viewed for 3GCI's classification [A4_HUMAN] [PA23_NAJSG] 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 [A4_HUMAN] [PA23_NAJSG] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3GCI
  • Community annotation for 3GCI 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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