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conserved_putative_restriction_endonuclease

Euk-Vir

Melbournevirus

conserved_putative_restriction_endonuclease__YP_009094865__Melbournevirus__1560514

Identity

Accession:
YP_009094865 ↗
Protein ID:
conserved_putative_restriction_endonuclease
Kingdom:
euk

Quality

86.8 mean pLDDT

Taxonomy

Bamfordvirae› Nucleocytoviricota› Megaviricetes› Pimascovirales› Marseilleviridae› Marseillevirus› Marseillevirus_sp._'Melbournevirus'

TaxID: 1560514

Cluster

View cluster (37 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 383-498
PDB
Domain cluster: rep: LacPavin_0818_WC40_scaffold_193576_prodigal-single.1__X__X__00294__D106-220
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF04480.19 best DUF559 23.5 5.70e-05 66.4% 46.8%
D2 medium residues 21-94
PDB
Domain cluster: rep: restriction_endonuclease__YP_007354634__Acanthamoeba_polyphaga_moumouvirus__1269028__D242-298
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF14311.13 best DUF4379 36.2 7.70e-09 70.3% 75.0%
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2wj9B00 3.30.70.3580 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Antirestriction protein 0.67 46.0 3.69e-01 71.6% 69.0%
2kmgA00 3.30.70.3580 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Antirestriction protein 0.60 44.0 3.62e-01 79.7% 76.8%
1g5hB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.56 40.0 3.53e-01 74.3% 74.8%
7cfdA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.56 38.0 3.91e-01 71.6% 74.0%
5ygbA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.56 38.0 3.71e-01 70.3% 76.2%
1qe0A02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.54 37.0 3.52e-01 73.0% 82.4%
2q5iA03 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.53 42.0 3.64e-01 87.8% 80.2%
1nj1A02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.52 39.0 3.54e-01 81.1% 76.9%
2i4lB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.52 37.0 3.37e-01 74.3% 75.2%
2yztA00 3.30.160.250 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 31.0 3.31e-01 83.8% 65.2%
1adjB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.52 39.0 3.66e-01 81.1% 83.0%
1httA02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.52 38.0 3.52e-01 79.7% 82.7%
1td6A02 3.30.1790.10 Alpha Beta › 2-Layer Sandwich › hypothetical protein mp506/mpn330, domain 2 › hypothetical protein mp506/mpn330, domain 2 0.51 35.0 3.32e-01 73.0% 77.2%
1x6gA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.50 35.0 3.46e-01 71.6% 80.2%
3wt0A02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.50 34.0 2.77e-01 70.3% 53.8%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3598807 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.84 61.0 6.35e-01 75.7% 91.3%
3605531 375.1.1.77 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF4379 0.83 64.0 6.16e-01 81.1% 81.0%
3592370 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.79 72.0 5.98e-01 97.3% 90.8%
1282459 3822.1.1.1 ↗ alpha complex topology › Intergenic-region protein › Intergenic-region protein › Intergenic-region protein › Antirestrict 0.67 46.0 3.69e-01 71.6% 69.0%
5061701 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.59 40.0 3.65e-01 70.3% 92.0%
3739884 1016.1.1.1 ↗ alpha arrays › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 › Pan3_PK 0.58 40.0 3.40e-01 73.0% 74.4%
3514631 1016.1.1.1 ↗ alpha arrays › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 › Pan3_PK 0.57 40.0 3.42e-01 73.0% 79.0%
2321219 1016.1.1.1 ↗ alpha arrays › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 › Pan3_PK 0.57 40.0 3.31e-01 73.0% 61.2%
4562754 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.57 43.0 3.91e-01 81.1% 86.0%
4640921 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.56 39.0 3.68e-01 74.3% 81.7%
4489788 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.56 40.0 3.71e-01 78.4% 85.0%
2321841 1016.1.1.1 ↗ alpha arrays › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 › Pan3_PK 0.55 38.0 3.15e-01 73.0% 67.6%
4163844 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.55 41.0 3.82e-01 81.1% 83.2%
3744118 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.53 38.0 3.62e-01 75.7% 87.8%
4177792 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.53 41.0 3.57e-01 81.1% 74.5%
4326019 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.53 40.0 3.65e-01 81.1% 79.0%
4946165 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 35.0 3.94e-01 71.6% 92.7%
4136172 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.53 39.0 3.66e-01 81.1% 84.2%
3314214 7502.1.1.7 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon2 0.53 41.0 3.67e-01 86.5% 83.6%
4375036 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.53 39.0 3.57e-01 79.7% 80.0%
4547689 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.52 38.0 3.63e-01 79.7% 74.4%
4297095 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.52 39.0 3.52e-01 81.1% 77.1%
4997768 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.52 32.0 3.65e-01 74.3% 83.6%
3627688 4.1.1.319 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_Hsr9 0.52 39.0 3.09e-01 79.7% 79.3%
4928458 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.51 39.0 3.65e-01 81.1% 86.7%
4381486 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.51 35.0 3.35e-01 71.6% 86.4%
4994848 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.51 40.0 3.66e-01 89.2% 86.7%
3744042 216.1.1.27 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › HGTP_anticodon2 0.51 39.0 3.12e-01 81.1% 57.9%
4015071 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.51 35.0 3.64e-01 71.6% 77.1%
4980648 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.51 35.0 3.59e-01 71.6% 80.0%
4556449 6020.1.1.1 ↗ a+b two layers › Beta domain of DivIB/FtsQ › Beta domain of DivIB/FtsQ › Beta domain of DivIB/FtsQ › FtsQ_DivIB_C 0.51 44.0 3.71e-01 100.0% 75.2%
4947286 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.51 40.0 3.46e-01 85.1% 74.8%
4327535 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.50 37.0 3.70e-01 79.7% 78.8%
4011604 4.1.1.13 ↗ beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd 0.50 35.0 3.50e-01 71.6% 76.0%
1551409 2484.1.1.70 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FtsA 0.50 34.0 2.62e-01 71.6% 46.0%
D3 medium residues 95-147
PDB
Domain cluster: rep: restriction_endonuclease__YP_009345354__Noumeavirus__1955558__D260-319
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF14311.13 best DUF4379 32.6 1.00e-07 90.6% 75.0%
D4 medium residues 166-240
PDB
Domain cluster: rep: SRR1747018_scaffold_15_prodigal-single.1__X__X__00405__D414-500
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF14311.13 best DUF4379 47.2 2.70e-12 73.3% 96.4%
D5 medium residues 241-326
PDB
Domain cluster: rep: restriction_endonuclease__YP_007354634__Acanthamoeba_polyphaga_moumouvirus__1269028__D242-298
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF14311.13 best DUF4379 42.1 1.10e-10 63.9% 92.9%
D6 medium residues 327-379
PDB
Domain cluster: rep: restriction_endonuclease__YP_007354634__Acanthamoeba_polyphaga_moumouvirus__1269028__D242-298
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF14311.13 best DUF4379 34.3 2.90e-08 96.2% 92.9%