←Back to structures

exodeoxyribonuclease_III

Euk-Vir

Phaeocystis_globosa_virus

exodeoxyribonuclease_III__YP_008052413__Phaeocystis_globosa_virus__251749

Identity

Accession:
YP_008052413 ↗
Protein ID:
exodeoxyribonuclease_III
Kingdom:
euk

Quality

71.2 mean pLDDT

Taxonomy

Bamfordvirae› Nucleocytoviricota› Megaviricetes› Algavirales› Phycodnaviridae› Prymnesiovirus› Phaeocystis_globosa_virus

TaxID: 251749

Cluster

View cluster (25 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 1-99_240-264
PDB
Domain cluster: rep: MW073017.1__QPB08595.1__X__00116__D1-72_227-258
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF03372.30 best Exo_endo_phos 50.3 3.70e-13 91.1% 38.8%
CATH (22)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1bixA00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.84 79.0 5.94e-01 100.0% 94.2%
3g6sA00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.81 76.0 5.81e-01 100.0% 99.2%
4fpvB00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.81 77.0 5.86e-01 100.0% 96.9%
2j63A00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.79 75.0 5.31e-01 100.0% 88.3%
4fvaC00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.79 74.0 5.75e-01 100.0% 97.6%
4zkfA01 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.78 73.0 5.25e-01 100.0% 95.5%
1vybA00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.75 70.0 5.55e-01 99.2% 98.7%
3o4fH02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.59 44.0 3.68e-01 79.0% 51.8%
3ia1B00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.59 42.0 4.02e-01 99.2% 64.1%
1inlD01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 43.0 3.61e-01 79.0% 50.9%
5hh1A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.57 40.0 3.42e-01 70.2% 51.3%
2p1mB02 3.80.10.10 Alpha Beta › Alpha-Beta Horseshoe › Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) › Ribonuclease Inhibitor 0.57 42.0 2.79e-01 78.2% 98.9%
4grfA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 40.0 3.90e-01 100.0% 66.4%
3or5A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.55 40.0 3.85e-01 100.0% 65.5%
2jlmA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.54 39.0 3.50e-01 98.4% 52.5%
5jtfB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 39.0 3.49e-01 83.1% 54.3%
1vhsA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 36.0 3.32e-01 98.4% 52.1%
2h00B00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.52 43.0 3.67e-01 90.3% 85.7%
4jxqA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.52 41.0 3.63e-01 96.8% 56.5%
1zmaA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.51 29.0 3.05e-01 98.4% 58.5%
3dr6B00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 36.0 3.29e-01 98.4% 53.8%
3igrA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.50 35.0 3.17e-01 98.4% 49.7%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3346565 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.83 79.0 5.83e-01 100.0% 91.0%
3527820 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.82 77.0 5.56e-01 100.0% 85.9%
3622298 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.82 77.0 5.68e-01 100.0% 94.6%
3496943 246.3.1.0 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like 0.81 77.0 5.54e-01 100.0% 95.2%
3358067 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.81 76.0 5.53e-01 100.0% 93.2%
3283968 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.81 76.0 6.15e-01 100.0% 100.0%
4389392 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.80 75.0 5.46e-01 99.2% 93.5%
2754119 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.80 74.0 5.22e-01 100.0% 91.7%
3735206 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.79 74.0 5.24e-01 100.0% 92.3%
3789262 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.79 74.0 5.04e-01 99.2% 96.2%
165331 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.79 75.0 5.31e-01 100.0% 88.3%
3247981 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.79 74.0 5.36e-01 99.2% 99.7%
3608887 246.3.1.0 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like 0.79 75.0 5.75e-01 100.0% 98.8%
3507800 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.79 74.0 5.21e-01 100.0% 99.1%
3714235 246.3.1.0 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like 0.78 73.0 5.70e-01 100.0% 99.2%
3211061 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.78 72.0 5.16e-01 100.0% 94.8%
3675211 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.76 71.0 5.65e-01 99.2% 99.6%
3584172 246.3.1.0 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like 0.76 70.0 5.49e-01 100.0% 94.9%
3875601 141.1.1.0 ↗ alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases 0.76 71.0 4.14e-01 100.0% 24.2%
3766919 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.76 71.0 4.33e-01 100.0% 33.4%
3753580 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.76 71.0 5.59e-01 100.0% 97.1%
3884315 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.75 71.0 4.38e-01 100.0% 37.6%
3877667 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.75 70.0 5.54e-01 100.0% 98.8%
4867356 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.75 70.0 5.54e-01 99.2% 99.1%
3915025 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.75 70.0 4.28e-01 100.0% 34.6%
4404035 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.75 70.0 5.59e-01 100.0% 95.7%
None — 0.75 70.0 4.32e-01 100.0% 37.5%
4872964 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.75 69.0 5.51e-01 99.2% 100.0%
3913784 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.74 70.0 5.39e-01 100.0% 94.1%
3264539 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.74 70.0 5.56e-01 100.0% 95.2%
3228266 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.73 67.0 5.38e-01 100.0% 95.8%
3878047 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.73 67.0 5.25e-01 98.4% 94.8%
3784945 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.73 67.0 5.16e-01 100.0% 98.9%
3659884 328.5.1.0 ↗ a+b two layers › IF3-like › SirA-like › SirA-like 0.63 47.0 5.09e-01 78.2% 95.2%
4988477 2003.1.5.20 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MethyltransfD12 0.62 44.0 3.37e-01 71.8% 90.7%
3580424 2003.1.5.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ 0.60 44.0 3.95e-01 76.6% 70.9%
4252267 213.1.1.7 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › FemAB 0.57 41.0 3.64e-01 73.4% 57.8%
5050921 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.57 36.0 3.59e-01 96.0% 59.2%
3668242 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.56 41.0 2.72e-01 78.2% 94.5%
4311222 7523.1.1.5 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › PDT 0.56 39.0 3.33e-01 72.6% 99.5%
4331148 2003.1.5.14 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_3 0.55 45.0 4.08e-01 89.5% 100.0%
3253272 2003.1.5.54 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_10 0.54 45.0 3.39e-01 91.1% 78.1%
3950719 7523.1.1.5 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › PDT 0.54 38.0 3.90e-01 71.0% 100.0%
None — 0.53 44.0 3.48e-01 91.1% 80.8%
3414785 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.51 35.0 3.23e-01 97.6% 52.7%
D2 medium residues 100-239
PDB