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NC_049340.1__YP_009873991.1__HYO65_gp307__00307

Bact-Vir

NC_049340.1__YP_009873991.1__HYO65_gp307__00307

Identity

Accession:
NC_049340 ↗
Kingdom:
phage

Quality

87.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Shirahamavirus› Tenacibaculum_phage_PTm1

TaxID: 2547425

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 20-72
PDB
Domain cluster: representative
CATH (42)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1oaiA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.84 59.0 5.68e-01 100.0% 66.1%
2dzlA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.83 58.0 5.37e-01 100.0% 59.1%
2l2dA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.80 54.0 4.79e-01 96.2% 50.7%
7qv0F01 1.10.1200.10 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like 0.78 57.0 4.95e-01 79.2% 98.8%
5c0yA02 1.10.150.80 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › HRDC domain 0.77 56.0 4.62e-01 77.4% 73.1%
2damA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.76 55.0 5.06e-01 100.0% 59.7%
3e21A00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.75 51.0 5.69e-01 100.0% 95.0%
6wshA02 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 0.75 60.0 5.99e-01 92.5% 83.6%
1yt3A02 1.10.150.80 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › HRDC domain 0.75 55.0 4.41e-01 77.4% 66.7%
2di0A01 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.74 52.0 5.49e-01 98.1% 84.8%
1qo0D02 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 0.74 60.0 6.41e-01 90.6% 100.0%
1s8nA02 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 0.72 61.0 5.92e-01 94.3% 84.5%
1v92A00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.69 48.0 5.05e-01 100.0% 84.8%
2f4lA03 3.10.28.20 Alpha Beta › Roll › Endonuclease I-creI › Acetamidase/Formamidase-like domains 0.69 62.0 5.37e-01 100.0% 68.8%
1aisB01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.67 56.0 4.57e-01 94.3% 53.5%
3go9A02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.67 50.0 3.36e-01 83.0% 34.1%
2g8lB01 1.10.8.380 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Uncharacterised protein PF01937, DUF89, domain 1 0.66 55.0 5.20e-01 100.0% 83.6%
8aigA01 1.10.1200.10 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like 0.66 49.0 4.35e-01 81.1% 93.5%
3rh9A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.65 45.0 2.86e-01 73.6% 63.0%
5ejdA00 1.10.1200.10 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like 0.65 49.0 4.36e-01 81.1% 96.0%
2aplA01 1.10.8.330 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › PG0816-like 0.64 53.0 5.01e-01 100.0% 94.1%
7px0A01 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.64 56.0 4.30e-01 100.0% 50.0%
3lcnB00 1.10.340.40 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Nuclear abundant poly(A) RNA-bind protein 2, N-terminal domain 0.63 52.0 4.42e-01 100.0% 91.8%
2e1qC10 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.63 55.0 4.18e-01 100.0% 46.9%
4lzjA02 1.10.8.1080 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.63 57.0 4.93e-01 100.0% 77.2%
3h4cA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.62 53.0 4.41e-01 98.1% 59.4%
6rxaA01 1.10.40.30 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › Fumarase/aspartase (C-terminal domain) 0.62 54.0 4.61e-01 100.0% 71.3%
2oap202 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.61 47.0 3.02e-01 100.0% 16.2%
2om6A02 1.10.150.400 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.61 54.0 4.66e-01 96.2% 88.6%
2vy1A00 1.10.4180.10 Mainly Alpha › Orthogonal Bundle › Protein LEAFY › Protein LEAFY 0.61 54.0 3.85e-01 100.0% 65.6%
5ekdA02 1.10.240.10 Mainly Alpha › Orthogonal Bundle › Tyrosyl-Transfer RNA Synthetase › Tyrosyl-Transfer RNA Synthetase 0.61 54.0 4.25e-01 100.0% 50.5%
3py8A04 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.61 45.0 3.35e-01 81.1% 56.9%
5xs2B02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.61 50.0 3.90e-01 100.0% 40.2%
5ts9B00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.60 50.0 3.68e-01 100.0% 47.8%
1u9pA00 1.10.1220.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant › Met repressor-like 0.60 48.0 4.00e-01 90.6% 81.2%
1evyA02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.59 50.0 3.71e-01 98.1% 87.0%
5dvwA00 1.20.120.1160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.58 47.0 3.56e-01 92.5% 59.8%
3psfA05 1.10.10.2740 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Spt6, Death-like domain 0.56 39.0 3.28e-01 100.0% 40.0%
1x9nA01 1.10.3260.10 Mainly Alpha › Orthogonal Bundle › DNA ligase i, domain 1 › DNA ligase, ATP-dependent, N-terminal domain 0.56 45.0 2.99e-01 100.0% 27.6%
4i3vA01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.55 47.0 3.02e-01 100.0% 40.9%
1w36C06 1.10.10.990 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.52 36.0 3.35e-01 75.5% 62.5%
3djbA01 1.10.472.50 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like 0.52 41.0 3.61e-01 100.0% 62.5%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3592892 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.86 54.0 6.19e-01 90.6% 85.0%
3924698 103.1.1.14 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_4 0.85 60.0 6.53e-01 100.0% 86.7%
3990749 103.1.1.28 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_8 0.82 63.0 6.01e-01 100.0% 71.7%
3816377 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.82 57.0 5.84e-01 98.1% 76.0%
3620421 103.1.1.143 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_ARIH2_N 0.81 57.0 5.64e-01 100.0% 70.9%
3278934 103.12.1.1 ↗ alpha arrays › RuvA-C › ANTAR domain › ANTAR domain › ANTAR 0.74 67.0 6.40e-01 100.0% 90.0%
3386163 1077.1.1.1 ↗ few secondary structure elements › RelA zinc-finger domain › RelA zinc-finger domain › RelA zinc-finger domain › RelA_RIS 0.72 61.0 4.52e-01 100.0% 36.4%
3255346 101.1.10.1 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin_N 0.70 62.0 4.63e-01 100.0% 43.1%
4595166 5076.2.1.0 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ 0.69 58.0 3.90e-01 100.0% 36.4%
4273747 101.1.10.3 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.69 60.0 4.37e-01 100.0% 37.3%
4934951 164.1.1.1 ↗ alpha bundles › Chorismate mutase II › Chorismate mutase II › Chorismate mutase II › CM_2 0.69 43.0 3.59e-01 77.4% 36.7%
4938108 101.1.10.3 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.69 60.0 4.38e-01 100.0% 38.6%
4945282 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.62 52.0 4.14e-01 98.1% 46.5%
4994385 2006.1.1.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase 0.62 45.0 3.02e-01 81.1% 50.9%
5046776 4009.1.1.0 ↗ alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins 0.61 53.0 4.96e-01 100.0% 86.2%
3520356 5073.1.1.0 ↗ alpha bundles › Calcium ATPase transmembrane domain-related › Calcium ATPase transmembrane domain-related › Calcium ATPase transmembrane domain M 0.60 47.0 2.77e-01 86.8% 22.4%
3213609 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.60 52.0 4.60e-01 96.2% 88.5%
3890040 101.1.10.3 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.60 49.0 3.79e-01 100.0% 46.4%
3535287 101.1.10.7 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin_C 0.59 47.0 4.37e-01 96.2% 69.3%
4018706 5076.1.1.4 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › PF29555 0.59 48.0 3.22e-01 100.0% 42.7%
3608709 101.1.10.15 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB_C_1 0.59 47.0 3.84e-01 100.0% 46.7%
4454337 5068.1.1.1 ↗ alpha bundles › a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) › a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) › a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) › Cytochrom_B_C 0.58 45.0 3.38e-01 88.7% 77.9%
4263412 620.1.1.2 ↗ alpha bundles › YfiT-like putative metal-dependent hydrolases › YfiT-like putative metal-dependent hydrolases › YfiT-like putative metal-dependent hydrolases › DinB 0.58 46.0 3.39e-01 92.5% 31.6%
4973623 4095.1.1.0 ↗ alpha bundles › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain 0.58 48.0 3.17e-01 92.5% 43.6%
4965039 2488.1.1.1 ↗ a/b three-layered sandwiches › alpha/beta knot › alpha/beta knot › alpha/beta knot › SpoU_methylase 0.57 44.0 2.97e-01 92.5% 21.6%
5082058 164.1.1.1 ↗ alpha bundles › Chorismate mutase II › Chorismate mutase II › Chorismate mutase II › CM_2 0.56 40.0 3.66e-01 77.4% 54.7%
5063959 131.1.1.0 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like 0.56 48.0 2.93e-01 100.0% 35.3%
5024662 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 0.56 46.0 3.25e-01 94.3% 33.1%
3598979 4095.1.1.0 ↗ alpha bundles › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain 0.54 43.0 2.95e-01 100.0% 27.6%
3284826 5081.1.1.1 ↗ alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like › Rhomboid 0.54 45.0 3.10e-01 100.0% 74.5%
4055 164.1.1.1 ↗ alpha bundles › Chorismate mutase II › Chorismate mutase II › Chorismate mutase II › CM_2 0.54 43.0 3.23e-01 100.0% 45.5%
5025739 4953.1.1.2 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › ADSL_C 0.53 43.0 3.92e-01 96.2% 66.7%
3279597 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.53 46.0 3.73e-01 100.0% 84.8%
5065205 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.51 35.0 2.69e-01 75.5% 47.1%
3422458 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 0.50 42.0 3.86e-01 96.2% 77.1%