1SMD Hydrolase (O-Glycosyl) date Jan 24, 1996
title Human Salivary Amylase
authors N.Ramasubbu
compound source
Molecule: Amylase
Chain: A
Ec: 3.2.1.1
Other_details: Human Salivary Amylase
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Secretion: Parotid Saliva
symmetry Space Group: P 21 21 21
R_factor 0.184 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
53.200 75.400 136.600 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand CA, CL, PCA enzyme Hydrolase E.C.3.2.1.1 BRENDA
note 1SMD (Molecule of the Month:pdb74, pdb138)
related structures by homologous chain: 1KXQ, 1Z32
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure of human salivary alpha-amylase at 1.6 A resolution: implications for its role in the oral cavity., Ramasubbu N, Paloth V, Luo Y, Brayer GD, Levine MJ, Acta Crystallogr D Biol Crystallogr. 1996 May 1;52(Pt 3):435-46. PMID:15299664
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (88 Kb) [Save to disk]
  • Biological Unit Coordinates (1smd.pdb1.gz) 84 Kb
  • LPC: Ligand-Protein Contacts for 1SMD
  • CSU: Contacts of Structural Units for 1SMD
  • Likely Quarternary Molecular Structure file(s) for 1SMD
  • Structure Factors (511 Kb)
  • Retrieve 1SMD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1SMD from S2C, [Save to disk]
  • Re-refined 1smd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1SMD 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 1SMD
  • 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 1SMD, from MSDmotif at EBI
  • Genome occurence of 1SMD's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1smd_2, region 1-403 [Jmol] [rasmolscript] [script source]
        - Domain d1smd_1, region 404-496 [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: [1smd_A] [1smd]
  • SWISS-PROT database: [P04745]
  • Domain organization of [AMY1_HUMAN] by SWISSPFAM
  • Domains found in 1SMD: [Aamy] [Aamy_C ] by SMART
    • Other resources with information on 1SMD
  • Community annotation for 1SMD at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Domain movements in 1SMD from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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