1S1D Hydrolase date Jan 06, 2004
title Structure And Protein Design Of Human Apyrase
authors J.Dai, J.Liu, Y.Deng, T.M.Smith, M.Lu
compound source
Molecule: Apyrase
Chain: A, B
Synonym: Ca2+-Dependent Endoplasmic Reticulum Nucleoside Diphosphatase; Apyrase; Soluble Calcium-Activated Nucleotidase Scan-1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Shapy
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
symmetry Space Group: P 1
R_factor 0.164 R_Free 0.194
length a length b length c angle alpha angle beta angle gamma
43.163 52.450 77.478 98.99 106.99 100.09
method X-Ray Diffractionresolution 1.60 Å
ligand ACT, CA, GP2, SO4, TRS enzyme Hydrolase E.C. BRENDA
related structures by homologous chain: 1S18
A, B

Primary referenceStructure and protein design of a human platelet function inhibitor., Dai J, Liu J, Deng Y, Smith TM, Lu M, Cell 2004 Mar 5;116(5):649-59. PMID:15006348
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (124 Kb) [Save to disk]
  • Biological Unit Coordinates (1s1d.pdb1.gz) 61 Kb
  • Biological Unit Coordinates (1s1d.pdb2.gz) 60 Kb
  • LPC: Ligand-Protein Contacts for 1S1D
  • CSU: Contacts of Structural Units for 1S1D
  • Likely Quarternary Molecular Structure file(s) for 1S1D
  • Structure Factors (1091 Kb)
  • Retrieve 1S1D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1S1D from S2C, [Save to disk]
  • Re-refined 1s1d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1S1D 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 1S1D
  • 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 1S1D, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1s1da_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1s1db_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1s1d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1s1d] [1s1d_B] [1s1d_A]
  • SWISS-PROT database: [Q8WVQ1]
  • Domain organization of [CANT1_HUMAN] by SWISSPFAM
  • Other resources with information on 1S1D
  • Community annotation for 1S1D 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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