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restriction_endonuclease

Euk-Vir

Brazilian_marseillevirus

restriction_endonuclease__YP_009238579__Brazilian_marseillevirus__1813599

Identity

Accession:
YP_009238579 ↗
Protein ID:
restriction_endonuclease
Kingdom:
euk

Quality

75.3 mean pLDDT

Taxonomy

Bamfordvirae› Nucleocytoviricota› Megaviricetes› Pimascovirales› Marseilleviridae› Marseillevirus› Brazilian_marseillevirus

TaxID: 1813599

Cluster

View cluster (37 members)

3D Structure

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Domains

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

D1 high residues 259-313
PDB
Domain cluster: rep: restriction_endonuclease__YP_009345354__Noumeavirus__1955558__D260-319
D2 high residues 324-445
PDB
Domain cluster: rep: LacPavin_0818_WC40_scaffold_193576_prodigal-single.1__X__X__00294__D106-220
D3 medium residues 110-164
PDB
Domain cluster: rep: restriction_endonuclease__YP_009345354__Noumeavirus__1955558__D260-319
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2wj9B00 3.30.70.3580 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Antirestriction protein 0.66 51.0 3.77e-01 85.5% 40.0%
4bwxA03 1.10.287.3700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.65 49.0 4.33e-01 81.8% 75.0%
2qqrA02 3.10.330.70 Alpha Beta › Roll › Vcp-like ATPase; Chain A, domain 2 › 0.64 49.0 4.98e-01 81.8% 100.0%
1igqB00 2.30.30.150 Mainly Beta › Roll › SH3 type barrels. › KorB, C-terminal domain 0.62 46.0 4.61e-01 80.0% 75.4%
7co7D03 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.60 45.0 3.88e-01 83.6% 96.8%
4xr7F02 1.10.287.3700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.60 43.0 3.73e-01 78.2% 66.7%
2kmsA02 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.60 45.0 4.52e-01 89.1% 87.9%
2cudA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.57 45.0 3.92e-01 83.6% 68.4%
5e3iA02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.57 42.0 3.56e-01 81.8% 91.9%
4iupA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.57 46.0 4.28e-01 90.9% 90.3%
6nhiA02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.57 45.0 3.92e-01 87.3% 82.1%
1b7tA02 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.57 44.0 4.55e-01 85.5% 88.5%
2k6pA00 3.10.290.10 Alpha Beta › Roll › Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A › RNA-binding S4 domain 0.56 42.0 3.83e-01 87.3% 94.0%
2d9tA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.56 44.0 4.64e-01 83.6% 95.9%
1xjkA00 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.56 42.0 2.37e-01 80.0% 10.6%
4wi1A02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.56 45.0 3.52e-01 90.9% 58.5%
1adjB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.55 44.0 3.74e-01 89.1% 73.4%
4fw1A02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.55 40.0 4.07e-01 78.2% 81.5%
7ejoB01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.55 37.0 3.30e-01 70.9% 98.8%
1khcA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.54 45.0 4.25e-01 89.1% 89.2%
3wt0A02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.54 45.0 3.35e-01 100.0% 55.6%
3kxtA00 2.30.30.610 Mainly Beta › Roll › SH3 type barrels. › Chromatin protein Cren7 0.53 39.0 3.96e-01 80.0% 91.1%
1tgjA00 2.10.90.10 Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines 0.53 40.0 3.34e-01 89.1% 74.1%
3zuaA01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.53 44.0 3.35e-01 94.5% 42.7%
1fy7A02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.52 38.0 3.06e-01 85.5% 61.9%
7u32F02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.51 39.0 4.06e-01 85.5% 96.1%
1z1bA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.51 35.0 3.53e-01 87.3% 71.9%
6ieoA03 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.51 37.0 3.34e-01 89.1% 91.5%
ECOD (34)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3592370 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.91 80.0 6.02e-01 94.5% 46.7%
3598807 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.88 71.0 6.56e-01 87.3% 78.3%
3712524 375.1.1.77 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF4379 0.84 57.0 5.74e-01 70.9% 78.2%
3605531 375.1.1.77 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF4379 0.82 74.0 6.32e-01 98.2% 72.6%
3940795 109.4.1.102 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › WAPL 0.67 46.0 2.67e-01 72.7% 27.4%
3620947 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.66 46.0 4.62e-01 80.0% 72.7%
4778018 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 0.65 48.0 4.23e-01 80.0% 73.2%
3628455 109.4.1.102 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › WAPL 0.65 47.0 2.66e-01 76.4% 29.2%
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 0.63 54.0 4.17e-01 100.0% 75.2%
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 0.61 53.0 4.16e-01 100.0% 79.8%
2623930 4001.1.1.4 ↗ a+b duplicates or obligate multimers › a+b domain in cullin-like proteins › a+b domain in cullin-like proteins › a+b domain in cullin-like proteins › Cullin_AB 0.61 43.0 3.46e-01 74.5% 74.8%
3388188 206.1.3.43 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › DUF6815 0.61 50.0 3.30e-01 92.7% 28.3%
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 0.60 52.0 3.99e-01 100.0% 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 0.60 50.0 4.13e-01 94.5% 78.0%
3832390 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.59 43.0 3.35e-01 80.0% 40.8%
3680858 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.59 43.0 3.11e-01 80.0% 47.3%
3566431 389.1.2.1 ↗ few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › Sushi 0.58 45.0 4.48e-01 90.9% 85.0%
3970890 3174.2.1.1 ↗ beta barrels › Ribosomal protein L14-like › Barrel domain in flagellar protein FlgA › Barrel domain in flagellar protein FlgA › ChapFlgA 0.58 50.0 4.86e-01 94.5% 98.3%
3843756 376.1.1.20 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_UBOX 0.57 41.0 3.45e-01 81.8% 44.2%
3671986 4.1.1.238 ↗ beta barrels › SH3 › SH3 › SH3 › KOW5_SPT5 0.56 48.0 4.38e-01 90.9% 74.3%
3398093 4.1.1.43 ↗ beta barrels › SH3 › SH3 › SH3 › SMN_Tudor 0.56 48.0 4.66e-01 92.7% 90.0%
3397293 109.3.1.96 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank+Ank_2+Ank_4 0.56 45.0 2.52e-01 89.1% 14.0%
3738641 4.1.1.102 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_3 0.56 47.0 4.24e-01 92.7% 78.7%
4979113 620.1.1.6 ↗ alpha bundles › YfiT-like putative metal-dependent hydrolases › YfiT-like putative metal-dependent hydrolases › YfiT-like putative metal-dependent hydrolases › DinB_2 0.54 46.0 3.43e-01 98.2% 82.4%
4054592 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 0.54 42.0 3.53e-01 89.1% 69.0%
4032204 2484.1.1.178 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA+FtsA 0.54 44.0 2.76e-01 100.0% 22.1%
3816842 109.4.1.498 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF4487 0.53 46.0 2.61e-01 100.0% 17.2%
4015071 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 44.0 4.07e-01 92.7% 74.3%
5016957 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.53 45.0 3.22e-01 100.0% 70.3%
4435043 2484.1.1.178 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA+FtsA 0.53 44.0 2.73e-01 100.0% 22.5%
3579075 380.1.1.13 ↗ few secondary structure elements › Kringle-like › Kringle-like › Kringle-like › PF25866 0.51 39.0 3.31e-01 83.6% 79.8%
4192665 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.51 42.0 3.41e-01 98.2% 47.5%
4547689 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.51 42.0 3.70e-01 100.0% 74.4%
4608282 2484.1.1.70 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FtsA 0.50 35.0 2.15e-01 81.8% 10.6%
D4 medium residues 183-238
PDB
Domain cluster: rep: restriction_endonuclease__YP_009345354__Noumeavirus__1955558__D260-319