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conserved_restriction_endonuclease

Euk-Vir

Melbournevirus

conserved_restriction_endonuclease__YP_009094641__Melbournevirus__1560514

Identity

Accession:
YP_009094641 ↗
Protein ID:
conserved_restriction_endonuclease
Kingdom:
euk

Quality

79.6 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 412-521
PDB
Domain cluster: rep: LacPavin_0818_WC40_scaffold_193576_prodigal-single.1__X__X__00294__D106-220
D2 medium residues 28-126
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 31.2 2.80e-07 56.6% 87.5%
D3 medium residues 127-187
PDB
Domain cluster: rep: restriction_endonuclease__YP_009345354__Noumeavirus__1955558__D260-319
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF14311.13 best DUF4379 37.4 3.20e-09 91.8% 98.2%
D4 medium residues 188-274
PDB
Domain cluster: rep: SRR1747018_scaffold_15_prodigal-single.1__X__X__00405__D414-500
D5 medium residues 275-325
PDB
Domain cluster: rep: restriction_endonuclease__YP_009345354__Noumeavirus__1955558__D260-319
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4bwxA03 1.10.287.3700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.66 54.0 4.65e-01 90.2% 80.0%
1igqB00 2.30.30.150 Mainly Beta › Roll › SH3 type barrels. › KorB, C-terminal domain 0.60 46.0 4.48e-01 88.2% 75.4%
3pvlA05 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.60 51.0 4.50e-01 98.0% 98.7%
4xr7F02 1.10.287.3700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.59 47.0 4.01e-01 90.2% 71.1%
2v8iA02 2.30.30.880 Mainly Beta › Roll › SH3 type barrels. › 0.57 45.0 4.49e-01 88.2% 98.1%
3rauA00 1.25.40.280 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › alix/aip1 like domains 0.57 42.0 2.63e-01 86.3% 41.6%
1g5hB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.57 49.0 3.91e-01 100.0% 71.0%
1b7tA02 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.56 46.0 4.66e-01 96.1% 90.4%
2cudA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.56 46.0 4.02e-01 92.2% 68.4%
7cfdA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.55 48.0 4.25e-01 96.1% 67.1%
4xcmA02 3.90.1720.10 Alpha Beta › Alpha-Beta Complex › endopeptidase fold (from Nostoc punctiforme) › endopeptidase domain like (from Nostoc punctiforme) 0.55 41.0 3.20e-01 84.3% 69.1%
4tm3A00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 43.0 2.55e-01 88.2% 32.9%
1adjB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.54 45.0 3.83e-01 100.0% 75.5%
4b9wA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.54 44.0 4.31e-01 92.2% 82.1%
4fw1A02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.54 42.0 4.14e-01 86.3% 81.5%
2v1qA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.54 44.0 4.22e-01 92.2% 93.3%
2eqkA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.54 44.0 3.97e-01 94.1% 71.2%
1x6gA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.53 43.0 3.78e-01 94.1% 75.3%
1aihA00 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.53 40.0 2.96e-01 92.2% 68.8%
5i4eA01 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.53 42.0 4.43e-01 88.2% 97.8%
5yvrA01 3.40.50.1970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.52 41.0 2.81e-01 88.2% 51.3%
3kxtA00 2.30.30.610 Mainly Beta › Roll › SH3 type barrels. › Chromatin protein Cren7 0.52 41.0 4.06e-01 88.2% 91.1%
1td6A02 3.30.1790.10 Alpha Beta › 2-Layer Sandwich › hypothetical protein mp506/mpn330, domain 2 › hypothetical protein mp506/mpn330, domain 2 0.52 45.0 3.72e-01 98.0% 79.3%
6yllA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.52 39.0 3.41e-01 84.3% 85.4%
2do3A01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.52 42.0 4.21e-01 94.1% 92.2%
3i35A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.51 41.0 4.03e-01 92.2% 93.0%
4c0dB00 2.30.30.1020 Mainly Beta › Roll › SH3 type barrels. › CCR4-NOT complex subunit 2/3/5, C-terminal domain 0.51 40.0 2.74e-01 88.2% 23.6%
5w7tA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 41.0 3.44e-01 96.1% 89.7%
1fvuB00 3.10.100.10 Alpha Beta › Roll › Mannose-Binding Protein A; Chain A › Mannose-Binding Protein A, subunit A 0.50 41.0 3.15e-01 92.2% 79.3%
4eqaC00 2.40.128.650 Mainly Beta › Beta Barrel › Lipocalin › 0.50 42.0 3.11e-01 100.0% 92.7%
ECOD (31)
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 0.84 75.0 5.65e-01 100.0% 45.0%
3598807 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.84 75.0 6.80e-01 100.0% 81.2%
3712524 375.1.1.77 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF4379 0.84 64.0 6.27e-01 82.4% 81.8%
3605531 375.1.1.77 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF4379 0.83 74.0 6.24e-01 100.0% 67.9%
3620947 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.64 48.0 4.75e-01 90.2% 76.4%
3993294 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.63 49.0 4.35e-01 96.1% 59.0%
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 0.62 54.0 4.10e-01 100.0% 73.6%
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 0.62 54.0 4.13e-01 100.0% 80.6%
4943204 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.62 51.0 4.03e-01 98.0% 70.0%
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 0.62 53.0 3.94e-01 98.0% 60.4%
5028428 384.1.1.1 ↗ few secondary structure elements › BPTI-like › BPTI-like › BPTI-like › Kunitz_BPTI 0.60 37.0 3.58e-01 76.5% 52.5%
3518287 4.1.1.347 ↗ beta barrels › SH3 › SH3 › SH3 › KOW7_SPT5, KOW6_SPT5 0.60 50.0 3.89e-01 94.1% 53.0%
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 0.60 51.0 3.81e-01 100.0% 66.9%
4321082 389.1.1.103 ↗ few secondary structure elements › EGF-like › EGF-related › EGF/Laminin › PF30000 0.59 36.0 3.85e-01 70.6% 71.1%
3925731 4.1.1.41 ↗ beta barrels › SH3 › SH3 › SH3 › NOT2_3_5_C 0.59 48.0 3.33e-01 92.2% 29.2%
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 0.58 48.0 3.46e-01 94.1% 54.2%
3716753 2499.1.1.1 ↗ a/b three-layered sandwiches › Subtilisin-like › Subtilisin-like › Subtilisin-like › Peptidase_S8 0.56 41.0 2.60e-01 88.2% 71.7%
3553625 376.1.1.1 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-C3HC4 0.55 41.0 4.09e-01 94.1% 80.0%
3323219 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 31.0 3.67e-01 70.6% 93.3%
3281618 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.55 46.0 3.71e-01 96.1% 74.0%
4969220 4013.1.1.1 ↗ a/b three-layered sandwiches › a/b domain in QueA-like proteins (Pfam 02547) › a/b domain in QueA-like proteins (Pfam 02547) › a/b domain in QueA-like proteins (Pfam 02547) › Queuosine_synth 0.54 37.0 2.41e-01 72.5% 34.5%
3240406 4.1.1.347 ↗ beta barrels › SH3 › SH3 › SH3 › KOW7_SPT5, KOW6_SPT5 0.54 45.0 3.47e-01 94.1% 42.6%
4952128 2484.4.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like › Nitro_FeMo-Co 0.53 40.0 3.31e-01 90.2% 73.6%
4623194 2484.1.1.70 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FtsA 0.53 42.0 2.87e-01 94.1% 29.5%
3579075 380.1.1.13 ↗ few secondary structure elements › Kringle-like › Kringle-like › Kringle-like › PF25866 0.52 40.0 3.41e-01 90.2% 77.7%
3580045 375.1.1.217 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PF26040 0.52 33.0 3.83e-01 72.5% 97.1%
4944932 2484.4.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like 0.52 39.0 3.25e-01 90.2% 74.3%
4024508 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.51 41.0 3.02e-01 98.0% 67.9%
3920343 209.1.1.1 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.51 41.0 3.00e-01 94.1% 70.0%
4980648 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.50 42.0 3.87e-01 100.0% 75.7%
5060760 4.1.1.13 ↗ beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd 0.50 41.0 3.92e-01 100.0% 80.0%