1QD6 Membrane Protein date Jul 09, 1999
title Outer Membrane Phospholipase A From Escherichia Coli
authors H.J.Snijder, I.Ubarretxena-Belandia, M.Blaauw, K.H.Kalk, H.M.Ver M.R.Egmond, N.Dekker, B.W.Dijkstra
compound source
Molecule: Outer Membrane Phospholipase (Ompla)
Chain: A, B
Fragment: Resdiues 33-45
Engineered: Yes
Synthetic: Yes

Molecule: Protein (Outer Membrane Phospholipase (Ompla))
Chain: C, D
Ec: 3.1.1.32
Engineered: Yes
Mutation: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.226 R_Free 0.283
crystal
cell
length a length b length c angle alpha angle beta angle gamma
80.067 84.038 95.245 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand CA, HDS enzyme Hydrolase E.C.3.1.1.32 BRENDA
related structures by homologous chain: 1QD5
Gene
Ontology
ChainFunctionProcessComponent
D, C


Primary referenceStructural evidence for dimerization-regulated activation of an integral membrane phospholipase., Snijder HJ, Ubarretxena-Belandia I, Blaauw M, Kalk KH, Verheij HM, Egmond MR, Dekker N, Dijkstra BW, Nature 1999 Oct 14;401(6754):717-21. PMID:10537112
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (89 Kb) [Save to disk]
  • Biological Unit Coordinates (1qd6.pdb1.gz) 44 Kb
  • Biological Unit Coordinates (1qd6.pdb2.gz) 43 Kb
  • Biological Unit Coordinates (1qd6.pdb3.gz) 84 Kb
  • LPC: Ligand-Protein Contacts for 1QD6
  • CSU: Contacts of Structural Units for 1QD6
  • Likely Quarternary Molecular Structure file(s) for 1QD6
  • Retrieve 1QD6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1QD6 from S2C, [Save to disk]
  • View 1QD6 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 1QD6
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1QD6, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1qd6.1, region A:,C [Jmol] [rasmolscript] [script source]
        - Domain d1qd6.2, region B:,D [Jmol] [rasmolscript] [script source]
  • 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: [1qd6_C] [1qd6_D] [1qd6_A] [1qd6_B] [1qd6]
  • SWISS-PROT database: [P0A921]
  • Domain organization of [PA1_ECOLI] by SWISSPFAM
  • Other resources with information on 1QD6
  • Community annotation for 1QD6 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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