Letunic et al. (2017) Nucleic Acids Res doi: 10.1093/nar/gkx922
Letunic et al. (2020) Nucleic Acids Res doi: 10.1093/nar/gkaa937

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EXOIII

SMART accession number:	SM00479
Description:	exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases
Interpro abstract (IPR013520):	This entry includes a variety of exonuclease proteins, such as ribonuclease T [ (PUBMED:8506149) ] and the epsilon subunit of DNA polymerase III. Ribonuclease T is responsible for the end-turnover of tRNA,and removes the terminal AMP residue from uncharged tRNA. DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria, and also exhibits 3' to 5' exonuclease activity.
Family alignment:	View or CHROMA formatHMM/Web logoCLUSTALW formatMSF formatFASTA formatPIR format

There are 66161 EXOIII domains in 66129 proteins in SMART's nrdb database.

Click on the following links for more information.

• Evolution (species in which this domain is found)

• Taxonomic distribution of proteins containing EXOIII domain.

  This tree includes only several representative species. The complete taxonomic breakdown of all proteins with EXOIII domain is also avaliable.

  Click on the protein counts, or double click on taxonomic names to display all proteins containing EXOIII domain in the selected taxonomic class.

• Cellular role (predicted cellular role)

• Cellular role: replication
  

• Literature (relevant references for this domain)

• Primary literature is listed below; Automatically-derived, secondary literature is also avaliable.

  • Koonin EV, Deutscher MP
  • RNase T shares conserved sequence motifs with DNA proofreading exonucleases.
  • Nucleic Acids Res. 1993; 21: 2521-2
• Metabolism (metabolic pathways involving proteins which contain this domain)

• Click the image to view the interactive version of the map in iPath

  % proteins involved KEGG pathway ID Description 99.10 map03030 DNA replication 0.45 map00240 Pyrimidine metabolism 0.45 map00230 Purine metabolism This information is based on mapping of SMART genomic protein database to KEGG orthologous groups. Percentage points are related to the number of proteins with EXOIII domain which could be assigned to a KEGG orthologous group, and not all proteins containing EXOIII domain. Please note that proteins can be included in multiple pathways, ie. the numbers above will not always add up to 100%.

• Structure (3D structures containing this domain)

• 3D Structures of EXOIII domains in PDB

  PDB code	Main view	Title
  1j53		Structure of the N-terminal Exonuclease Domain of the Epsilon Subunit of E.coli DNA Polymerase III at pH 8.5
  1j54		Structure of the N-terminal exonuclease domain of the epsilon subunit of E.coli DNA polymerase III at pH 5.8
  1j9a		OLIGORIBONUCLEASE
  1w0h		Crystallographic structure of the nuclease domain of 3'hExo, a DEDDh family member, bound to rAMP
  1wlj		human ISG20
  1y97		The human TREX2 3' exonuclease structure suggests a mechanism for efficient non-processive DNA catalysis
  1yta		Crystal Structure of Oligoribonuclease, the lone essential exoribonuclease in Escherichia coli
  1zbh		3'-end specific recognition of histone mRNA stem-loop by 3'-exonuclease
  1zbu		crystal structure of full-length 3'-exonuclease
  2f96		2.1 A crystal structure of Pseudomonas aeruginosa rnase T (Ribonuclease T)
  2gbz		The Crystal Structure of XC847 from Xanthomonas campestris: a 3-5 Oligoribonuclease of DnaQ fold family with a Novel Opposingly-Shifted Helix
  2gui		Structure and Function of Cyclized Versions of the Proofreading Exonuclease Subunit of E. coli DNA Polymerase III
  2ido		Structure of the E. coli Pol III epsilon-Hot proofreading complex
  2igi		Crystal Structure of E. coli Oligoribonuclease
  2ioc		The crystal structure of TREX1 explains the 3' nucleotide specificity and reveals a polyproline II helix for protein partenring
  2is3		Crystal Structure of Escherichia coli RNase T
  2o4g		Structure of TREX1 in complex with a nucleotide
  2o4i		Structure of TREX1 in complex with DNA
  2oa8		Crystal Structure of mTREX1 with ssDNA
  2p1j		Crystal structure of a polC-type DNA polymerase III exonuclease domain from Thermotoga maritima
  2xri		Crystal structure of human ERI1 exoribonuclease 3
  2xy8		Paramagnetic-based NMR structure of the complex between the N- terminal epsilon domain and the theta domain of the DNA polymerase III
  3b6o		Structure of TREX1 in complex with a nucleotide and an inhibitor ion (lithium)
  3b6p		Structure of TREX1 in complex with a nucleotide and inhibitor ions (sodium and zinc)
  3cg7		Crystal structure of cell-death related nuclease 4 (CRN-4)
  3cm5		Crystal structure of Cell-Death Related Nuclease 4 (CRN-4) bound with Mn
  3cm6		Crystal structure of cell-death related nuclease 4 (CRN-4) bound with Er
  3mxi		TREX1 3' Exonuclease D18N Familial Chilblain Lupus Mutant
  3mxj		Crystal Structure of the mTREX1 Apoprotein
  3mxm		TREX1 3' Exonuclease V201D Aicardi-Goutieres Syndrome Mutant
  3ngy		Crystal structure of RNase T (E92G mutant)
  3ngz		Crystal structure of RNase T in complex with a non-preferred ssDNA (GC) with one Mg in the active site
  3nh0		Crystal structure of RNase T in complex with a non-preferred ssDNA (AAC)
  3nh1		Crystal structure of RNase T in complex with a preferred ssDNA (TAGG) with two Mg in the active site
  3nh2		Crystal structure of RNase T in complex with a stem DNA with a 3' overhang
  3tr8		Structure of an oligoribonuclease (orn) from Coxiella burnetii
  3u3y		Mouse TREX1 D200H mutant
  3u6f		Mouse TREX1 D200N mutant
  3v9s		Crystal structure of RNase T in complex with a product ssDNA (AAC) with one Mg in the active site
  3v9u		Crystal structure of RNase T in complex with a preferred ssDNA (AAT) with two Mg in the active site
  3v9w		Crystal structure of RNase T in complex with a preferred ssDNA (TTA) with two Mg in the active site
  3v9x		Crystal structure of RNase T in complex with a preferred ssDNA (AAA) with two Mg in the active site
  3v9z		Crystal structure of RNase T in complex with a product ssDNA (ACC) with one Mg in the active site
  3va0		Crystal structure of RNase T in complex with a di-nucleotide product (GG) with one Mg in the active site
  3va3		Crystal structure of RNase T in complex with a duplex DNA product (stem loop DNA with 2 nucleotide 3' overhang)
  4czw		4CZW
  4fzx		Exonuclease X in complex with 3' overhanging duplex DNA
  4fzy		Exonuclease X in complex with 12bp blunt-ended dsDNA
  4fzz		Exonuclease X in complex with 5' overhanging duplex DNA
  4kaz		Crystal structure of RNase T in complex with a Y structured DNA
  4kb0		Crystal structure of RNase T in complex with a bluge DNA (Two nucleotide insertion CC )
  4kb1		Crystal structure of RNase T in complex with a bluge DNA (two nucleotide insertion CT )
  4l8r		Structure of mrna stem-loop, human stem-loop binding protein and 3'hexo ternary complex
  4q8h		4Q8H
  4qoz		4QOZ
  4rg8		4RG8
  4xr7		4XR7
  4ynq		4YNQ
  5cy4		5CY4
  5dk5		5DK5
  5fku		5FKU
  5fkv		5FKV
  5fkw		5FKW

• Links (links to other resources describing this domain)

• INTERPRO	IPR013520
  PFAM	Exonuclease

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