Exonuclease

Exonucleases (ExN) cleave nucleotides at the end of a polynucleotide chain. In E. coli there are ExN I to VIII. ExN were found in human and yeast as well. ExN-I cleaves single-stranded DNA. ExN-II is associated with DNA polymerase. ExN-III cleaves double-stranded DNA. ExN-IV cleavage results in nucleoside monophosphate. ExN-V cleaves linear double-stranded DNA. ExN-VIII requires a free 5’ OH group for reacting. For phage ExN see Sand box 211. in E. coli exonuclease I (PDB code 1fxx). Water molecules shown as red spheres.

spinqualitylabelsall models E. coli exonuclease I complex with phosphate, glycerol and Mg+2 ion (PDB code 1fxx) Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image

3D Structures of exonuclease3D Structures of exonuclease

Updated on 14-March-2019 {{#tree:id=OrganizedByTopic|openlevels=0|

• ExN-I

• • 1fxx, 3c95 – EcExN-I – Escherichia coli
    
  • 2qxf - EcExN-I + TMP
    
  • 3hl8, 3hp9 - EcExN-I + inhibitor
    
  • 3c94 - EcExN-I + DNA-binding C terminal peptide
    
  • 4jrp, 4jrq, 4js5, 4js4, 4hcc, 4hcb – EcExN-I + DNA
    
  • 3qe9, 5v07, 5v08, 5v09, 5v0a – hExN-I (mutant) + DNA – human
    
  • 3qea, 3qeb, 5v04, 5v05, 5v06, 5v0b, 5v0c, 5v0d, 5v0e, [[5uzv] - hExN-I + DNA
    
  • 4rg8 – ExN-I (mutant) – Methylocaldum szegedienes
    
  • 5fiq, 5fis – ExN-I ExN domain – silkworm
    

• ExN-III

• • 2voa – AfExN-III (mutant) + DNA – Archaeoglobus fulgidus
    
  • 3g1k - MtExN-III – Methanothermobacter thermaautotrophicus
    
  • 3g3c, 3g4t - MtExN-III + DNA
    
  • 3fzi, 3g8v, 3g91 - MtExN-III (mutant)
    
  • 3g00, 3g0r, 3g2c, 3g2d, 3g38, 3g3y, 3ga6 - MtExN-III (mutant) + DNA
    
  • 3g0a - MtExN-III (mutant) + Mn
    
  • 1ako – EcExN-III

• ExN-IV

• • 2jc4 – ExN-IV – Nisseria meningitides

• ExN-V

• • 1w36, 3k70 – EcExN-V α+β+γ + DNA hairpin
    
  • 3e1s - EcExN-V RECD subunit
    
  • 3gp8 - DrExN-V RECD subunit + DNA – Deinococcus radiodurans
    
  • 3gpl - DrExN-V RECD subunit + DNA + ADPNP

• ExN-VII

• • 1vp7 – ExN-VII small subunit – Bordetella pertussis

• ExN-VIII

• • 3h4r - EcExN-VIII C terminal (mutant)

• ExN-X

• • 4fzz, 4fzy, 4fzx - EcExN-X + DNA
    

• 5’ ExN or exodeoxyribonuclease

• • 1ut5, 1ut8 – T5-5’-ExN + metal – Bacteriophage T5
    
  • 1exn, 1xo1 - T5-5’-ExN (mutant)
    
  • 5hmm - EpT5-5’-ExN + metal – Escherichia phage T5
    
  • 5hml - EpT5-5’-ExN (mutant) + metal
    
  • 5hnk, 5hp4 - EpT5-5’-ExN (mutant) + metal + DNA
    
  • 1avq – BlExN λ (mutant) – Bacteriophage λ
    
  • 3slp, 4wuz - BlExN λ + DNA
    
  • 3sm4 - BlExN λ (mutant) + DNA
    
  • 3k93 – ExN – Haemophilus somnus

• Exosome complex ExN see Exosome

• ssDNA-specific ExN

• • 5ght – TkExN – Thermococcus kodakarensis
    
  • 5ghs, 5ghr – TkExN + polypeptide
    
  • 5f54 – DrExN + dTMP
    
  • 5f55 – DrExN + DNA
    
  • 5f56 – DrExN + DNA + polypeptide
    

• 3'-5' ExN

• • 4yor, 4yot, 4you – PhExN phoexo I – Pyrococcus horikoshii
    
  • 4yov, 4yow, 4yox, 4yoy – PhExN phoexo I (mutant) + DNA
    
  • 4qoz, 4l8r – hExN + histone RNA hairpin-binding protein + RNA
    

• 5’-3’ ExN

• • 6c33 – MsExN – Mycobacterium smegmatis
    
  • 6c34, 6c35, 6c36 – MsExN (mutant)
    

• ExN Trex

• • 1y97 – hExN Trex2
    
  • 2o4g - mExN Trex1 + nucleotide – mouse
    
  • 3mxj - mExN Trex1
    
  • 2o4i, 3mxi, 3mxm, 3u3y, 3u6f - mExN Trex1 (mutant) + polynucleotide
    
  • 2oa8 - mExN Trex1 + DNA
    
  • 4ynq - mExN Trex1 (mutant) + DNA
    
  • 3b6o, 3b6p - mExN Trex1 + ion inhibitor
    

• Other ExN

• • 1ir6, 2zxo, 2zxp, 2zxr – ExN Recj – Thermus thermophiles
    
  • 1w0h – hExn Eri1 nuclease domain
    
  • 1zbu - hExn Eri1
    
  • 1zbh - hExn Eri1 (mutant) + DNA
    
  • 5aho – hExN Apollo
    
  • 2w45 – H4ExN alkaline - Herpesvirus 4
    
  • 2w4b - H4ExN alkaline (mutant)
    
  • 3syy - LhExN alkaline – Laribacter hongkongensis
    
  • 3sz4 - LhExN alkaline + AMP
    
  • 3sz5 - LhExN alkaline + polynucleotide
    
  • 3e2v – yExN
    
  • 4lty, 4lu9, 4m0v – EcExN sbcD
    

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