3Q36 Transferase date Dec 21, 2010
title Crystal Structure Of The 4fe-4s Cluster Domain Of Human Dna Large Subunit
authors V.B.Agarkar, N.D.Babayeva, T.H.Tahirov
compound source
Molecule: Dna Primase Large Subunit
Chain: A, B
Fragment: 4fe-4s Cluster Domain (Unp Residues 266-457)
Synonym: Dna Primase 58 Kda Subunit, P58
Ec: 2.7.7.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Prim2, Prim2a
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28b
symmetry Space Group: C 1 2 1
R_factor 0.228 R_Free 0.250
length a length b length c angle alpha angle beta angle gamma
126.476 83.724 47.561 90.00 97.65 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand FE, SF4 enzyme Transferase E.C.2.7.7 BRENDA
A, B

Primary referenceCrystal structure of the C-terminal domain of human DNA primase large subunit: Implications for the mechanism of the primase - polymerase alpha switch., Agarkar VB, Babayeva ND, Pavlov YI, Tahirov TH, Cell Cycle. 2011 Mar 15;10(6). PMID:21346410
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (64 Kb) [Save to disk]
  • Biological Unit Coordinates (3q36.pdb1.gz) 31 Kb
  • Biological Unit Coordinates (3q36.pdb2.gz) 31 Kb
  • LPC: Ligand-Protein Contacts for 3Q36
  • CSU: Contacts of Structural Units for 3Q36
  • Structure Factors (225 Kb)
  • Retrieve 3Q36 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3Q36 from S2C, [Save to disk]
  • Re-refined 3q36 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3Q36 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 3Q36
  • 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 3Q36, from MSDmotif at EBI
  • Fold representative 3q36 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3q36] [3q36_A] [3q36_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3Q36
  • Community annotation for 3Q36 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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