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NC_028974.1__YP_009215313.1__AVT63_gp10__00010

Bact-Vir

NC_028974.1__YP_009215313.1__AVT63_gp10__00010

Identity

Accession:
NC_028974 ↗
Kingdom:
phage

Quality

91.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Woodruffvirus› Streptomyces_phage_YDN12

TaxID: 1636183

Cluster

View cluster (6 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 4-107
PDB
Domain cluster: rep: SR-VP_4-6_scaffold_141_476970_prodigal-single.1__X__X__00138__D3-131
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF07098.17 best DUF1360 33.2 5.90e-08 91.3% 77.5%
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1cf7B00 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 47.0 5.17e-01 99.0% 82.9%
3s64A00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.67 43.0 4.72e-01 99.0% 82.7%
2gsvA00 6.10.140.40 Special › Helix non-globular › Helix Hairpins › 0.63 41.0 4.78e-01 95.2% 100.0%
4didB01 1.20.58.450 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Cell division control protein 42 homolog 0.62 46.0 4.55e-01 94.2% 73.7%
3nbxX03 1.20.58.1510 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 34.0 3.45e-01 93.3% 54.5%
2hroA02 1.10.274.10 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › PtsI, HPr-binding domain 0.59 40.0 3.75e-01 97.1% 55.5%
2ynqB00 1.25.40.680 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Type VII secretion system EssB, C-terminal-like domain 0.59 33.0 2.93e-01 99.0% 39.1%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.58 34.0 3.80e-01 94.2% 75.3%
2b1eA02 1.20.1310.30 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › 0.57 40.0 3.59e-01 96.2% 49.7%
1s35A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 37.0 3.64e-01 94.2% 60.9%
1w0bA01 1.20.58.420 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › AHSP 0.56 40.0 4.23e-01 99.0% 84.8%
2mtqA00 1.20.58.130 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 33.0 3.79e-01 89.4% 80.8%
3qc1A01 1.25.40.540 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › TAP42-like family 0.55 37.0 3.33e-01 100.0% 47.7%
1f14A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.55 35.0 2.90e-01 96.2% 33.7%
5c4yA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 43.0 3.93e-01 100.0% 64.0%
3l1nA01 6.10.140.790 Special › Helix non-globular › Helix Hairpins › 0.54 27.0 3.78e-01 83.7% 100.0%
2q0oC00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.54 34.0 3.67e-01 94.2% 75.6%
3rkgA02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.53 42.0 3.59e-01 83.7% 56.1%
2ff4A02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.53 38.0 3.20e-01 75.0% 97.3%
2p61A00 1.20.120.490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hypothetical protein TM1646-like domain 0.53 33.0 3.26e-01 100.0% 56.1%
3fhnA04 1.20.58.670 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dsl1p vesicle tethering complex, Tip20p subunit, domain D 0.53 40.0 3.78e-01 100.0% 64.9%
2kmfA01 1.20.58.810 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Photosystem II Pbs27 0.52 31.0 3.20e-01 91.3% 58.8%
3k1rA01 1.20.1160.20 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › 0.52 31.0 3.37e-01 99.0% 72.8%
1sj8A02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.52 37.0 3.59e-01 88.5% 64.8%
2vxxA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.52 41.0 3.52e-01 86.5% 72.7%
5gj7A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.52 38.0 3.48e-01 80.8% 93.4%
2qupA00 1.20.120.490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hypothetical protein TM1646-like domain 0.52 33.0 3.26e-01 99.0% 57.1%
2lqgA00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.51 41.0 3.75e-01 86.5% 92.8%
1jgcA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.51 41.0 3.59e-01 87.5% 75.0%
4hd1A00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.51 44.0 3.33e-01 96.2% 55.1%
3rwlA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.50 45.0 3.05e-01 100.0% 38.1%
4a25B01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.50 41.0 3.55e-01 88.5% 77.0%
2w02B01 1.10.150.640 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › AcsD, thumb domain, helical bundle 0.50 32.0 3.77e-01 94.2% 91.9%
1siqA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.50 39.0 3.52e-01 86.5% 89.7%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3218140 188.1.1.1 ↗ alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Hormone_recep 0.61 48.0 3.53e-01 99.0% 31.4%
4369788 172.2.1.1 ↗ alpha complex topology › Citrate synthase-like › Urease accessory protein ureF › Urease accessory protein ureF › UreF 0.60 54.0 4.20e-01 100.0% 68.0%
4030274 5081.1.1.1 ↗ alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like › Rhomboid 0.60 42.0 3.60e-01 84.6% 43.9%
3448339 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.59 37.0 3.33e-01 99.0% 44.1%
4513812 3922.1.1.0 ↗ alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.59 37.0 4.20e-01 96.2% 88.0%
3710393 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.58 35.0 3.10e-01 96.2% 39.3%
5036832 604.39.1.0 ↗ alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters 0.57 51.0 4.47e-01 100.0% 80.6%
3962012 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.57 34.0 3.55e-01 94.2% 63.2%
3591396 3866.1.1.0 ↗ extended segments › Mitochondrial 54S ribosomal protein L25 › Mitochondrial 54S ribosomal protein L25 › Mitochondrial 54S ribosomal protein L25 0.57 40.0 4.18e-01 92.3% 78.9%
3923698 627.1.1.0 ↗ alpha complex topology › VPS9 domain › VPS9 domain › VPS9 domain 0.56 43.0 4.36e-01 100.0% 83.0%
3801787 604.5.1.39 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PF26581 0.56 35.0 3.26e-01 96.2% 46.7%
3966605 601.4.1.84 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains › KinB_sensor 0.56 37.0 3.58e-01 100.0% 58.3%
5050228 7014.1.1.2 ↗ alpha bundles › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › TauE 0.55 50.0 4.70e-01 100.0% 81.4%
5071659 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.55 39.0 4.04e-01 100.0% 77.0%
4129995 109.4.1.58 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Not1 0.55 44.0 3.18e-01 100.0% 29.4%
3393106 633.21.1.43 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › DUF7775 0.55 40.0 3.81e-01 78.8% 100.0%
3432902 603.1.1.5 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Syntaxin-6_N 0.54 34.0 3.36e-01 97.1% 56.5%
4999891 4163.1.1.1 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.54 30.0 3.07e-01 94.2% 52.4%
3417291 109.4.1.359 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Exo70_C 0.53 44.0 2.88e-01 99.0% 18.5%
3655823 109.4.1.602 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Dor1 0.53 45.0 3.00e-01 99.0% 22.2%
3784716 109.4.1.602 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Dor1 0.53 39.0 3.00e-01 95.2% 31.1%
3582455 3843.1.1.0 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.52 33.0 3.88e-01 99.0% 89.3%
4058767 7015.1.1.0 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.52 35.0 3.18e-01 85.6% 50.7%
3309583 604.12.1.65 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT_ATG1 0.52 33.0 3.63e-01 88.5% 82.5%
4440484 7015.1.1.0 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.51 38.0 3.44e-01 78.8% 82.1%
3972329 633.5.1.0 ↗ alpha bundles › Bromodomain-like › LemA-like › LemA-like 0.51 41.0 3.52e-01 86.5% 85.5%
3913234 633.21.1.23 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › CD20 0.51 40.0 3.74e-01 86.5% 95.6%
3453205 633.21.1.0 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.51 40.0 3.67e-01 85.6% 90.7%
4997872 633.10.1.0 ↗ alpha bundles › Bromodomain-like › IVS-encoded protein-like › IVS-encoded protein-like 0.51 37.0 3.69e-01 78.8% 100.0%
5044572 310.2.1.0 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.50 41.0 4.12e-01 99.0% 91.4%
4624369 5069.1.1.15 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › Cytochrom_C_asm 0.50 35.0 3.17e-01 89.4% 52.4%