2WM1 Lyase date Jun 29, 2009
title The Crystal Structure Of Human Alpha-Amino-Beta- Carboxymuconate-Epsilon-Semialdehyde Decarboxylase In Complex With 1,3- Dihydroxyacetonephosphate Suggests A Regulatory Link Between Nad Synthesis And Glycolysis
authors S.Garavaglia, S.Perozzi, L.Galeazzi, N.Raffaelli, M.Rizzi
compound source
Molecule: 2-Amino-3-Carboxymuconate-6-Semialdehyde Decarboxylase;
Chain: A
Synonym: Alpha-Amino-Beta-Carboxymuconate-Epsilon- Semialdehyde Decarboxylase;
Ec: 4.1.1.45
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
Expression_system_cell_line: Gs115
Expression_system_vector: Phil-D2
symmetry Space Group: P 32 2 1
R_factor 0.19288 R_Free 0.25674
crystal
cell
length a length b length c angle alpha angle beta angle gamma
86.227 86.227 92.168 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.01 Å
ligand 13P, GOL, ZN enzyme Lyase E.C.4.1.1.45 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe crystal structure of human alpha-amino-beta-carboxymuconate-epsilon-semialdehyde decarboxylase in complex with 1,3-dihydroxyacetonephosphate suggests a regulatory link between NAD synthesis and glycolysis., Garavaglia S, Perozzi S, Galeazzi L, Raffaelli N, Rizzi M, FEBS J. 2009 Oct 16. PMID:19843166
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (63 Kb) [Save to disk]
  • Biological Unit Coordinates (2wm1.pdb1.gz) 115 Kb
  • LPC: Ligand-Protein Contacts for 2WM1
  • CSU: Contacts of Structural Units for 2WM1
  • Structure Factors (1118 Kb)
  • Retrieve 2WM1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2WM1 from S2C, [Save to disk]
  • Re-refined 2wm1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2WM1 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 2WM1
  • 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 2WM1, from MSDmotif at EBI
  • Fold representative 2wm1 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2wm1_A] [2wm1]
  • SWISS-PROT database: [Q8TDX5]
  • Domain organization of [ACMSD_HUMAN] by SWISSPFAM
  • Other resources with information on 2WM1
  • Community annotation for 2WM1 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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