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NC_023594.2__YP_009008882.2__Spp001_62__00061

Bact-Vir

NC_023594.2__YP_009008882.2__Spp001_62__00061

Identity

Accession:
NC_023594 ↗
Kingdom:
phage

Quality

84.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Chaseviridae› Yushanvirus› Shewanella_phage_Spp001

TaxID: 1445859

Cluster

View cluster (26 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 50-136
PDB
Domain cluster: rep: MZ079855.1__QXN67603.1__X__00119__D22-84
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF07486.18 best Hydrolase_2 35.6 1.80e-08 82.8% 62.5%
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4f55A01 1.10.10.2520 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Cell wall hydrolase SleB, domain 1 0.84 69.0 7.20e-01 100.0% 95.0%
2ggfA00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.67 52.0 4.48e-01 94.3% 52.6%
3bujA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.65 51.0 3.32e-01 85.1% 65.5%
3phuA01 3.90.70.80 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.58 41.0 3.47e-01 75.9% 75.5%
1fkaG00 1.10.455.10 Mainly Alpha › Orthogonal Bundle › Ribosomal Protein S7 › Ribosomal protein S7/S5 0.58 40.0 3.55e-01 71.3% 50.8%
2z86D01 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.58 35.0 2.42e-01 96.6% 15.9%
4c9bB00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.57 48.0 3.37e-01 93.1% 37.9%
5jc3A02 1.20.1320.30 Mainly Alpha › Up-down Bundle › phosphoenolpyruvate carboxylase, domain 3 › 0.54 42.0 3.68e-01 86.2% 57.1%
6adqG01 1.20.120.80 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle 0.52 40.0 3.21e-01 82.8% 95.5%
6d5xA00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.52 38.0 3.23e-01 78.2% 58.3%
1f81A00 1.20.1020.10 Mainly Alpha › Up-down Bundle › CREB-binding Protein; Chain A › TAZ domain 0.52 37.0 3.77e-01 81.6% 77.0%
3lysA00 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.51 36.0 3.43e-01 90.8% 61.0%
1x9nA01 1.10.3260.10 Mainly Alpha › Orthogonal Bundle › DNA ligase i, domain 1 › DNA ligase, ATP-dependent, N-terminal domain 0.51 44.0 3.13e-01 96.6% 76.7%
2gf2A02 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 0.50 39.0 3.44e-01 85.1% 90.3%
3ljnA00 1.25.40.20 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Ankyrin repeat-containing domain 0.50 42.0 2.92e-01 94.3% 36.2%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
185732 3374.1.1.2 ↗ a+b complex topology › spore cortex-lytic enzyme catalytic domain › spore cortex-lytic enzyme catalytic domain › spore cortex-lytic enzyme catalytic domain › Hydrolase_2 0.84 69.0 5.99e-01 100.0% 59.4%
3927781 3065.1.1.2 ↗ alpha bundles › Fatty acid- and retinoid-binding proteins › Fatty acid- and retinoid-binding proteins › Fatty acid- and retinoid-binding proteins › Gp-FAR-1 0.63 53.0 4.26e-01 94.3% 91.1%
5011282 2004.1.1.76 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF87 0.59 46.0 3.10e-01 87.4% 44.0%
3517158 171.1.1.1 ↗ alpha arrays › RNase III catalytic domain-like › RNase III catalytic domain-like › RNase III catalytic domain-like › Ribonuclease_3 0.58 43.0 3.38e-01 80.5% 71.8%
5028308 109.4.1.207 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HEAT_2 0.57 36.0 2.77e-01 93.1% 27.7%
3495156 109.58.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › DNA repair protein Rev1 C-terminal domain › DNA repair protein Rev1 C-terminal domain › REV1_C 0.56 43.0 4.41e-01 92.0% 85.9%
4173259 129.1.1.9 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › NAD_Gly3P_dh_C 0.56 45.0 3.73e-01 89.7% 76.9%
4105334 1075.3.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC importer transmembrane domain fold › Type I ABC importer transmembrane domain fold › BPD_transp_1 0.55 43.0 3.23e-01 85.1% 90.9%
4957472 7516.1.1.2 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.54 38.0 2.62e-01 86.2% 19.4%
3869208 207.1.1.476 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › NLRC4_HD 0.53 37.0 2.48e-01 73.6% 26.3%
4056789 4198.1.1.2 ↗ alpha arrays › TerB-like › TerB-like › TerB-like › ThylakoidFormat 0.52 41.0 3.27e-01 89.7% 56.5%
3742525 4156.1.1.0 ↗ alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like 0.51 39.0 3.61e-01 81.6% 77.3%
3872372 196.1.1.0 ↗ alpha bundles › Regulator of G-protein signaling, RGS › Regulator of G-protein signaling, RGS › Regulator of G-protein signaling, RGS 0.51 39.0 3.03e-01 100.0% 37.4%
3910262 109.4.1.159 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › ELMO_ARM 0.51 37.0 2.72e-01 90.8% 26.5%
D2 high residues 147-206
PDB
Domain cluster: representative