4IYM Crystal structure of putative methylmalonate-semialdehyde dehydrogenase from Sinorhizobium meliloti 1021 complexed with NAD, target 011934 date 2013-01-28
authors Malashkevich, V.N., Bhosle, R., Toro, R., Hillerich, B., Gizzi, A., Garforth, S., Kar, A., Chan, M.K., Lafluer, J., Patel, H., Matikainen, B., Chamala, S., Lim, S., Celikgil, A., Villegas, G., Evans, B., Zenchek, W., Love, J., Fiser, A., Khafizov, K., Seidel, R., Bonanno, J.B., Almo, S.C., NYSGRC, New.York.Structural.Genomics.Research.Consortium.
compound source
symmetry
R_factor
R_Free 0.2094
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.20
ligand MG, MSE, NAD enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, N, K, E, M, C, L, A, J, O, P, B, H, D, I, G


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2489 Kb) [Save to disk]
  • Biological Unit Coordinates (4iym.pdb1.gz) 625 Kb
  • Biological Unit Coordinates (4iym.pdb2.gz) 628 Kb
  • Biological Unit Coordinates (4iym.pdb3.gz) 630 Kb
  • Biological Unit Coordinates (4iym.pdb4.gz) 627 Kb
  • LPC: Ligand-Protein Contacts for 4IYM
  • CSU: Contacts of Structural Units for 4IYM
  • Structure Factors (9852 Kb)
  • Retrieve 4IYM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4IYM from S2C, [Save to disk]
  • Re-refined 4iym structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4IYM 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 4IYM
  • 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 4IYM, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4iym_M] [4iym_A] [4iym_K] [4iym_E] [4iym_B] [4iym_P] [4iym_N] [4iym_G] [4iym_I] [4iym_F] [4iym_J] [4iym_H] [4iym_C] [4iym] [4iym_D] [4iym_O] [4iym_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4IYM
  • Community annotation for 4IYM at PDBWiki (http://pdbwiki.org)

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