3Q1K Ligase date Dec 17, 2010
title The Crystal Structure Of The D-Alanyl-Alanine Synthetase A F Salmonella Enterica Typhimurium Complexed With Adp
authors R.Zhang, N.Maltseva, L.Papazisi, W.Anderson, A.Joachimiak, Center Structural Genomics Of Infectious Diseases (Csgid)
compound source
Molecule: D-Alanine--D-Alanine Ligase A
Chain: A, B, C, D
Synonym: D-Ala-D-Ala Ligase A, D-Alanylalanine Synthetase A
Ec: 6.3.2.4
Engineered: Yes
Organism_scientific: Salmonella Enterica Subsp. Enterica Se Typhimurium;
Organism_taxid: 90371
Strain: Lt2
Gene: Ddl, Ddla, Stm0380
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21magic
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmcsg19c
symmetry Space Group: P 21 21 21
R_factor 0.176 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
85.153 85.813 230.893 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand ADP, FMT, GOL, MG, MSE, SO4 enzyme Ligase E.C.6.3.2.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (460 Kb) [Save to disk]
  • Biological Unit Coordinates (3q1k.pdb1.gz) 228 Kb
  • Biological Unit Coordinates (3q1k.pdb2.gz) 229 Kb
  • LPC: Ligand-Protein Contacts for 3Q1K
  • CSU: Contacts of Structural Units for 3Q1K
  • Structure Factors (642 Kb)
  • Retrieve 3Q1K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3Q1K from S2C, [Save to disk]
  • Re-refined 3q1k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3Q1K 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 3Q1K
  • 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
  • 3D motif for 3Q1K, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3q1k_C] [3q1k_A] [3q1k_D] [3q1k_B] [3q1k]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3Q1K
  • Community annotation for 3Q1K 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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