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uncharacterized_HNH_endonuclease

Euk-Vir

Acanthamoeba_polyphaga_mimivirus

uncharacterized_HNH_endonuclease__YP_003986741__Acanthamoeba_polyphaga_mimivirus__212035

Identity

Accession:
YP_003986741 ↗
Protein ID:
uncharacterized_HNH_endonuclease
Kingdom:
euk

Quality

86.6 mean pLDDT

Taxonomy

Bamfordvirae› Nucleocytoviricota› Megaviricetes› Imitervirales› Mimiviridae› Mimivirus› Acanthamoeba_polyphaga_mimivirus

TaxID: 212035

Cluster

View cluster (4 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 high residues 5-103
PDB
Domain cluster: rep: OP056089.1__UYD72102.1__X__00002__D5-102
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF07463.17 best NUMOD4 35.5 1.30e-08 41.4% 95.9%
D2 high residues 113-166
PDB
Domain cluster: rep: IMGVR_UViG_3300021426_000003-3300021426-Ga0224482_10000072181__D164-213
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF07453.20 best NUMOD1 27.8 3.10e-06 63.0% 78.4%
D3 high residues 172-271
PDB
Domain cluster: rep: OP056089.1__UYD72102.1__X__00002__D5-102
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF13392.13 best HNH_3 28.5 1.30e-06 44.0% 54.4%
D4 high residues 274-328
PDB
Domain cluster: rep: IMGVR_UViG_3300021426_000003-3300021426-Ga0224482_10000072181__D164-213
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF07453.20 best NUMOD1 32.5 1.10e-07 67.3% 89.2%
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1u3eM02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.91 81.0 7.43e-01 100.0% 76.5%
1aolA00 3.90.310.10 Alpha Beta › Alpha-Beta Complex › Viral Glycoprotein Gp70 › ENV polyprotein, receptor-binding domain 0.59 51.0 3.43e-01 100.0% 95.6%
2mf9A00 3.10.50.40 Alpha Beta › Roll › Chitinase A; domain 3 › 0.59 50.0 3.69e-01 98.2% 52.9%
7sqxA02 3.30.70.2150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 49.0 4.19e-01 100.0% 90.8%
3f1sB02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.58 42.0 3.51e-01 94.5% 45.2%
2x5pA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 45.0 3.66e-01 100.0% 45.2%
2kuqA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 49.0 3.64e-01 100.0% 48.4%
3gzkA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 44.0 3.94e-01 100.0% 59.5%
4p0dA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 47.0 3.66e-01 100.0% 43.5%
4h4nA00 2.60.40.3750 Mainly Beta › Sandwich › Immunoglobulin-like › 0.56 46.0 4.42e-01 100.0% 79.0%
1cidA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 38.0 3.58e-01 100.0% 56.3%
3ifrA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.56 40.0 2.65e-01 76.4% 54.2%
3irzA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 45.0 3.77e-01 90.9% 75.8%
2j1vA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.55 41.0 3.04e-01 100.0% 31.2%
2r6fA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.55 44.0 4.09e-01 100.0% 69.4%
2w4lB00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.55 40.0 2.97e-01 80.0% 73.9%
2f68X02 2.60.40.740 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 46.0 3.38e-01 100.0% 37.0%
6fwvA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 46.0 3.88e-01 98.2% 56.7%
2fkbC00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.54 46.0 3.33e-01 98.2% 57.5%
4c23B01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 44.0 2.93e-01 94.5% 32.9%
1ut9A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 44.0 3.67e-01 92.7% 70.4%
2o62A01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.53 44.0 3.47e-01 100.0% 87.8%
5c71A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 42.0 3.55e-01 90.9% 96.9%
2h0eB00 2.60.40.180 Mainly Beta › Sandwich › Immunoglobulin-like › Transthyretin/hydroxyisourate hydrolase domain 0.52 45.0 3.55e-01 100.0% 46.9%
7o52U02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 38.0 3.26e-01 100.0% 48.9%
2byvE03 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.52 46.0 3.21e-01 100.0% 35.2%
3kptA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 46.0 3.66e-01 98.2% 53.8%
4nbiB00 3.50.80.10 Alpha Beta › 3-Layer(bba) Sandwich › D-tyrosyl-trna(Tyr) Deacylase; Chain: A; › D-tyrosyl-tRNA(Tyr) deacylase 0.51 44.0 3.24e-01 98.2% 86.8%
4hh3A01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.51 45.0 3.54e-01 98.2% 85.1%
6u7jA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 43.0 3.65e-01 100.0% 57.3%
2grgA01 3.40.1840.10 Alpha Beta › 3-Layer(aba) Sandwich › Profilin-like › YNR034W-A-like 0.51 46.0 3.99e-01 100.0% 86.7%
3of1A02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 45.0 3.40e-01 100.0% 47.4%
3cf6E02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 45.0 3.53e-01 100.0% 55.2%
2dhoA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.50 40.0 2.82e-01 96.4% 63.7%
3c12A02 2.60.40.4070 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 46.0 3.90e-01 100.0% 63.2%
5icuA00 2.60.40.1220 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 41.0 3.39e-01 92.7% 64.7%
4es8B02 2.60.40.3580 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 45.0 3.68e-01 100.0% 78.2%
7rskA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 40.0 3.24e-01 89.1% 100.0%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2876 101.1.14.2 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › I-HmuI_NUMOD-like 0.91 81.0 7.39e-01 100.0% 75.4%
3171408 101.1.14.3 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 0.84 68.0 7.05e-01 87.3% 96.0%
4384880 101.1.14.3 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 0.84 74.0 6.36e-01 100.0% 63.5%
4414927 101.1.14.3 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 0.81 73.0 6.78e-01 100.0% 81.2%
5064207 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.63 44.0 3.57e-01 98.2% 40.0%
4256432 11.1.4.72 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › NOMO1-like_2nd 0.63 45.0 4.00e-01 100.0% 52.5%
5081326 11.1.1.608 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Por_Secre_tail 0.63 47.0 4.44e-01 100.0% 67.7%
4944290 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.63 45.0 3.80e-01 100.0% 46.7%
4991285 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.62 45.0 3.98e-01 100.0% 53.8%
5080825 11.1.1.608 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Por_Secre_tail 0.61 45.0 4.04e-01 100.0% 57.3%
3925735 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.60 44.0 3.60e-01 100.0% 41.9%
4956412 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.60 41.0 3.75e-01 100.0% 53.3%
3950412 11.1.4.130 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › DUF1416 0.59 47.0 4.25e-01 100.0% 64.0%
5032096 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.59 47.0 3.99e-01 100.0% 53.3%
4983601 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.59 47.0 3.98e-01 100.0% 53.3%
4994168 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.58 47.0 3.74e-01 100.0% 44.5%
3284181 11.1.1.691 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF1416 0.58 47.0 3.94e-01 100.0% 53.3%
4927800 3156.1.1.0 ↗ beta sandwiches › Cupredoxin-like › Cupredoxin-related › Cupredoxin-related 0.58 44.0 3.84e-01 98.2% 54.1%
4942476 11.1.4.23 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › CarboxypepD_reg 0.58 47.0 4.13e-01 100.0% 61.3%
5055096 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.57 47.0 4.12e-01 100.0% 61.3%
3309894 11.1.4.72 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › NOMO1-like_2nd 0.57 46.0 3.84e-01 89.1% 77.9%
5055373 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.57 46.0 3.61e-01 100.0% 42.6%
3986635 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.56 46.0 3.47e-01 90.9% 57.0%
4961041 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.55 46.0 4.06e-01 100.0% 62.5%
4319035 11.1.1.608 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Por_Secre_tail 0.55 44.0 4.16e-01 90.9% 76.8%
4060574 1.1.7.70 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Beta-barrel_GLAA-B_II 0.55 47.0 4.24e-01 98.2% 69.3%
3798089 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.54 43.0 3.56e-01 90.9% 59.0%
4033794 11.1.4.34 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › SdrD_B 0.54 46.0 3.61e-01 96.4% 80.0%
3532490 11.1.1.877 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › A2M, MG2, A2M_BRD, MG4 0.54 42.0 2.39e-01 100.0% 7.5%
3937007 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.53 48.0 3.16e-01 100.0% 31.4%
5032460 10.1.2.180 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) › EMP24_GP25L 0.53 41.0 3.67e-01 98.2% 58.7%
3472207 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.53 48.0 3.09e-01 100.0% 28.3%
3927867 11.1.4.70 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › NOMO1-like_1st 0.53 43.0 3.66e-01 90.9% 75.6%
3588234 11.1.4.36 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › SpaA 0.52 47.0 3.81e-01 98.2% 60.0%
4961048 11.1.4.23 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › CarboxypepD_reg 0.51 45.0 3.78e-01 100.0% 89.5%
3634461 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.51 44.0 4.04e-01 100.0% 73.0%
3521256 11.1.1.877 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › A2M, MG2, A2M_BRD, MG4 0.51 42.0 2.44e-01 100.0% 85.8%
4979454 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 45.0 3.58e-01 100.0% 50.9%
3992801 11.1.1.532 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C6 0.50 42.0 3.61e-01 100.0% 57.8%
3994333 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 40.0 3.28e-01 90.9% 59.1%
3998997 389.1.2.9 ↗ few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › C6 0.50 43.0 3.62e-01 100.0% 57.8%
5063052 11.1.1.1410 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CarboxypepD_reg 0.50 41.0 3.51e-01 92.7% 67.8%
3920818 11.1.1.375 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › A2M,MG2,A2M_BRD 0.50 41.0 2.45e-01 100.0% 82.0%