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URC17233.1

Arc-Vir

ON548428__URC17233.1__X__00056

Identity

Accession:
ON548428 ↗
Protein ID:
URC17233.1 ↗
Kingdom:
archaea

Quality

84.8 mean pLDDT

Taxonomy

Lokiarchaeota_virus_Fenrir_Meg22_1214

TaxID: 2946035

Cluster

Singleton — not in a non-trivial cluster

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 70-224
PDB
Domain cluster: rep: ON548425__URC16917.1__X__00163__D1-172
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5of3A00 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.79 64.0 4.93e-01 84.5% 57.1%
3h20A02 3.30.70.1790 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RepB DNA-primase, N-terminal domain 0.77 50.0 6.02e-01 92.9% 98.1%
4bpuC00 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.75 65.0 4.85e-01 92.3% 71.9%
1g71A01 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.73 59.0 5.03e-01 84.5% 54.7%
2iruA02 3.30.70.3300 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.73 58.0 6.14e-01 82.6% 98.6%
2faoA01 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.72 67.0 5.44e-01 100.0% 61.3%
2atzA00 3.90.920.20 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › HP0184-like 0.71 47.0 4.49e-01 91.6% 58.5%
1r9fA01 3.30.390.180 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › RNA silencing suppressor P19 0.55 30.0 3.46e-01 83.2% 71.6%
4e1pA00 3.30.60.230 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › Lsr2, dimerisation domain 0.54 17.0 2.64e-01 76.1% 67.3%
5l6gA02 3.40.462.20 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › 0.53 45.0 3.95e-01 92.3% 67.2%
2c60A01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.51 25.0 3.39e-01 71.6% 91.1%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4993038 862.1.1.0 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain 0.80 65.0 5.35e-01 84.5% 55.7%
4274062 862.1.1.1 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S 0.78 64.0 5.33e-01 84.5% 56.8%
4962169 862.1.1.0 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain 0.78 61.0 5.22e-01 84.5% 53.9%
4650634 862.1.1.1 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S 0.77 63.0 5.26e-01 84.5% 55.2%
4985674 862.1.1.5 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › LigD_Prim-Pol 0.76 69.0 5.60e-01 97.4% 67.4%
5066297 862.1.1.5 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › LigD_Prim-Pol 0.75 71.0 5.75e-01 100.0% 69.8%
3959043 862.1.1.0 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain 0.75 71.0 5.43e-01 100.0% 54.8%
4038221 862.1.1.1 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S 0.75 61.0 5.18e-01 84.5% 62.9%
4554731 862.1.1.1 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S 0.74 62.0 5.34e-01 87.1% 62.2%
4245789 304.150.1.1 ↗ a+b two layers › Alpha-beta plaits › Adapter protein mecA 2 C-terminal domain › Adapter protein mecA 2 C-terminal domain › MecA 0.67 37.0 4.76e-01 90.3% 92.2%
3602638 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.66 55.0 4.04e-01 98.7% 34.3%
3267289 304.6.1.3 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › BBE 0.55 46.0 3.87e-01 91.6% 58.2%
4312788 304.6.1.3 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › BBE 0.54 46.0 3.83e-01 92.3% 57.2%
3447791 304.6.1.3 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › BBE 0.53 46.0 3.76e-01 92.3% 54.4%
3596732 390.1.1.0 ↗ few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like 0.53 23.0 3.08e-01 90.3% 77.3%
4016417 304.6.1.3 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › BBE 0.53 44.0 3.74e-01 91.6% 55.1%
2721343 304.6.1.3 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › BBE 0.51 43.0 3.63e-01 92.3% 56.7%
3241299 390.1.1.1 ↗ few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like › PAN_1 0.50 26.0 3.12e-01 91.6% 74.7%
D2 high residues 242-354
PDB
Domain cluster: representative
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1owlA03 1.10.579.10 Mainly Alpha › Orthogonal Bundle › DNA Cyclobutane Dipyrimidine Photolyase, subunit A; domain 3 › DNA Cyclobutane Dipyrimidine Photolyase, subunit A, domain 3 0.76 67.0 5.74e-01 95.6% 86.4%
1u3dA03 1.10.579.10 Mainly Alpha › Orthogonal Bundle › DNA Cyclobutane Dipyrimidine Photolyase, subunit A; domain 3 › DNA Cyclobutane Dipyrimidine Photolyase, subunit A, domain 3 0.75 67.0 5.59e-01 96.5% 85.3%
3fy4C03 1.10.579.10 Mainly Alpha › Orthogonal Bundle › DNA Cyclobutane Dipyrimidine Photolyase, subunit A; domain 3 › DNA Cyclobutane Dipyrimidine Photolyase, subunit A, domain 3 0.73 65.0 5.26e-01 97.3% 91.0%
3n05A03 1.10.10.1510 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.65 38.0 4.58e-01 73.5% 86.8%
3h20A04 1.10.1240.50 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › 0.58 43.0 4.65e-01 99.1% 98.9%
3on3B00 3.40.920.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate-ferredoxin Oxidoreductase; domain 3 › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III 0.58 40.0 3.52e-01 72.6% 87.4%
3sqiA01 1.10.150.540 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.57 39.0 4.15e-01 70.8% 89.9%
3f0cA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 39.0 3.64e-01 72.6% 88.9%
1vi0A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 37.0 3.48e-01 73.5% 84.1%
3jsbA01 1.20.1440.300 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › RNA-directed RNA polymerase L, helical domain 0.52 35.0 4.06e-01 92.9% 97.5%
4m9aA01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.50 36.0 3.62e-01 76.1% 98.3%
2qqyA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.50 37.0 3.53e-01 78.8% 94.9%
ECOD (12)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5057453 182.1.3.3 ↗ alpha complex topology › Cryptochrome/photolyase FAD-binding domain-related › Cryptochrome/photolyase FAD-binding domain-related › PriX › DNA_primase_lrg 0.77 64.0 6.23e-01 88.5% 84.8%
5039859 6035.1.1.0 ↗ alpha bundles › Primase helical domain › Primase helical domain › Primase helical domain 0.68 51.0 5.68e-01 92.0% 98.9%
4990602 2004.1.3.1 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III › POR 0.61 42.0 3.57e-01 70.8% 83.8%
4956327 2004.1.3.1 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III › POR 0.60 41.0 3.56e-01 71.7% 88.3%
5007734 7064.1.1.1 ↗ alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.56 41.0 3.59e-01 77.0% 97.1%
3262738 592.1.1.2 ↗ alpha arrays › PWI domain-like › PWI domain › PWI domain › Helicase_PWI 0.56 38.0 3.71e-01 77.0% 62.4%
3480380 592.1.1.0 ↗ alpha arrays › PWI domain-like › PWI domain › PWI domain 0.55 38.0 3.87e-01 77.0% 71.8%
3691453 4033.1.1.1 ↗ alpha arrays › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA_dh_N 0.54 38.0 3.71e-01 73.5% 92.8%
3673343 138.1.1.0 ↗ alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain 0.54 34.0 3.56e-01 75.2% 68.6%
4972840 2004.1.3.1 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III › POR 0.52 42.0 3.44e-01 85.8% 86.8%
3827466 5069.1.1.7 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › Cytochrom_B561 0.51 43.0 3.58e-01 93.8% 96.7%
5077285 131.1.1.3 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD 0.51 45.0 3.11e-01 100.0% 45.1%
D3 medium residues 3-67
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1o54A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.61 45.0 3.27e-01 80.0% 78.2%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.60 46.0 3.24e-01 87.7% 88.3%
3rhtA00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.56 40.0 2.73e-01 76.9% 39.3%
1wh2A01 3.30.1490.40 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain 0.55 34.0 3.50e-01 98.5% 63.9%
4kyxA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.55 48.0 3.80e-01 100.0% 92.1%
6rwcA02 2.20.25.590 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.55 26.0 3.20e-01 72.3% 69.2%
2qsdB02 3.50.100.10 Alpha Beta › 3-Layer(bba) Sandwich › protein il1583 fold › protein il1583 domain 0.54 38.0 3.69e-01 78.5% 75.6%
2r44A02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 40.0 3.06e-01 83.1% 84.4%
2b0vA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.52 43.0 3.49e-01 100.0% 88.5%
1x5iA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 36.0 3.23e-01 100.0% 49.5%
6l1kA01 3.40.50.1970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.50 39.0 2.98e-01 89.2% 76.7%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5073703 327.11.2.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.57 29.0 3.24e-01 72.3% 60.0%
1787990 2003.1.2.49 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_2+FAD_binding_3 0.56 45.0 3.47e-01 95.4% 81.9%
5076015 2003.1.2.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox_2 0.54 41.0 3.06e-01 89.2% 48.2%
5027324 206.1.3.3 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › PPDK_N 0.52 38.0 2.44e-01 76.9% 88.9%