4MZ7 Hydrolase date Sep 29, 2013
title Structural Insight Into Dgtp-Dependent Activation Of Tetrame Deoxynucleoside Triphosphate Triphosphohydrolase
authors C.Zhu, W.Gao, K.Zhao, X.Qin, Y.Zhang, X.Peng, L.Zhang, Y.Dong, W.Zha W.Wei, Y.Gong, X.F.Yu
compound source
Molecule: Deoxynucleoside Triphosphate Triphosphohydrolase
Chain: A, B
Fragment: Unp Residues 109-626
Synonym: Dntpase, Dendritic Cell-Derived Ifng-Induced Prote Monocyte Protein 5, Mop-5, Sam Domain And Hd Domain-Contain Protein 1;
Ec: 3.1.5.-
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Samhd1, Mop5
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.194 R_Free 0.226
crystal
cell
length a length b length c angle alpha angle beta angle gamma
147.404 103.608 92.134 90.00 121.98 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand DGT, DTP, MG, ZN enzyme Hydrolase E.C.3.1.5 BRENDA
Primary referenceStructural insight into dGTP-dependent activation of tetrameric SAMHD1 deoxynucleoside triphosphate triphosphohydrolase., Zhu C, Gao W, Zhao K, Qin X, Zhang Y, Peng X, Zhang L, Dong Y, Zhang W, Li P, Wei W, Gong Y, Yu XF, Nat Commun. 2013 Nov 12;4:2722. doi: 10.1038/ncomms3722. PMID:24217394
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (190 Kb) [Save to disk]
  • Biological Unit Coordinates (4mz7.pdb1.gz) 361 Kb
  • LPC: Ligand-Protein Contacts for 4MZ7
  • CSU: Contacts of Structural Units for 4MZ7
  • Structure Factors (2059 Kb)
  • Retrieve 4MZ7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4MZ7 from S2C, [Save to disk]
  • Re-refined 4mz7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4MZ7 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 4MZ7
  • 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 4MZ7, from MSDmotif at EBI
  • Fold representative 4mz7 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4mz7] [4mz7_B] [4mz7_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4MZ7: [HDc ] by SMART
  • Other resources with information on 4MZ7
  • Community annotation for 4MZ7 at PDBWiki (http://pdbwiki.org)

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