1TFR Hydrolase date Apr 27, 1996
title Rnase H From Bacteriophage T4
authors T.C.Mueser, N.G.Nossal, C.C.Hyde
compound source
Molecule: T4 Rnase H
Chain: A
Synonym: T4 5u To 3u Exonuclease
Ec: 3.1.26.4
Engineered: Yes
Other_details: Two Octahedrally-Coordinated Mg2+ Ions In Active Site
Organism_scientific: Enterobacteria Phage T4
Organism_taxid: 10665
Strain: T4d
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_gene: T4rnh
symmetry Space Group: P 21 21 21
R_factor 0.205 R_Free 0.290
crystal
cell
length a length b length c angle alpha angle beta angle gamma
74.470 87.580 54.560 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.06 Å
ligand MG enzyme Hydrolase E.C.3.1.26.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • nuclease activity
  • endonuclease activity
  • RNA-DNA hybrid ribonuclease ...
  • exonuclease activity
  • 5'-3' exoribonuclease activi...


  • Primary referenceStructure of bacteriophage T4 RNase H, a 5' to 3' RNA-DNA and DNA-DNA exonuclease with sequence similarity to the RAD2 family of eukaryotic proteins., Mueser TC, Nossal NG, Hyde CC, Cell 1996 Jun 28;85(7):1101-12. PMID:8674116
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (56 Kb) [Save to disk]
  • Biological Unit Coordinates (1tfr.pdb1.gz) 52 Kb
  • LPC: Ligand-Protein Contacts for 1TFR
  • CSU: Contacts of Structural Units for 1TFR
  • Likely Quarternary Molecular Structure file(s) for 1TFR
  • Structure Factors (155 Kb)
  • Retrieve 1TFR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1TFR from S2C, [Save to disk]
  • Re-refined 1tfr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1TFR 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 1TFR
  • 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 1TFR, from MSDmotif at EBI
  • Genome occurence of 1TFR's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1tfr_2, region 12-180 [Jmol] [rasmolscript] [script source]
        - Domain d1tfr_1, region 183-305 [Jmol] [rasmolscript] [script source]
  • Fold representative 1tfr from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1tfr] [1tfr_A]
  • SWISS-PROT database: [P13319]
  • Domain organization of [RNH_BPT4] by SWISSPFAM
  • Domain found in 1TFR: [HhH2 ] by SMART
  • Other resources with information on 1TFR
  • Community annotation for 1TFR 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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