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NC_074758.1__YP_010774568.1__QJV46_gp62__00062

Bact-Vir

NC_074758.1__YP_010774568.1__QJV46_gp62__00062

Identity

Accession:
NC_074758 ↗
Kingdom:
phage

Quality

86.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Serbinvirus› Serratia_phage_vB_SmaS_Opt-155

TaxID: 2902690

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 4-57
PDB
Domain cluster: representative
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
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 0.95 74.0 7.35e-01 81.5% 80.0%
1f20A01 3.40.50.80 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module 0.91 65.0 4.43e-01 74.1% 24.5%
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 0.90 67.0 6.51e-01 77.8% 72.4%
3r6nA02 1.20.58.1060 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.85 64.0 4.48e-01 79.6% 34.8%
3otdA00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.84 75.0 4.74e-01 96.3% 21.7%
3ousA00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.79 60.0 5.15e-01 83.3% 53.7%
8ctsB01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.78 55.0 4.66e-01 74.1% 47.1%
5cbgA00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.76 57.0 4.64e-01 81.5% 44.1%
3c24A02 1.10.3640.10 Mainly Alpha › Orthogonal Bundle › putative oxidoreductase fold › Semialdehyde dehydrogenase-like, C-terminal 0.76 64.0 5.33e-01 98.1% 56.0%
3v9rB00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.74 59.0 5.32e-01 90.7% 63.9%
1yhlA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.70 62.0 3.68e-01 98.1% 81.2%
1zymA02 1.10.274.10 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › PtsI, HPr-binding domain 0.68 60.0 4.56e-01 100.0% 79.4%
2c5iT00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 54.0 4.42e-01 87.0% 51.1%
1z82B02 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 0.64 48.0 3.58e-01 83.3% 31.2%
4dsfA04 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.63 45.0 3.71e-01 79.6% 89.1%
1rykA00 1.10.1470.10 Mainly Alpha › Orthogonal Bundle › Protein Yjbj; Chain: A; › YjbJ 0.63 48.0 4.39e-01 79.6% 95.7%
4bvxA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.63 44.0 3.64e-01 81.5% 39.0%
3imoC00 3.30.920.70 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › 0.60 42.0 3.38e-01 74.1% 96.3%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3744144 632.6.1.5 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit › Med15_fungi 0.96 90.0 6.15e-01 98.1% 71.6%
4973801 7523.1.1.22 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › ABC2_membrane_3 0.89 71.0 5.15e-01 87.0% 34.1%
3651776 4106.1.1.1 ↗ few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC 0.88 72.0 4.82e-01 92.6% 25.3%
4941372 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.87 67.0 5.67e-01 81.5% 83.5%
3529707 4.1.1.453 ↗ beta barrels › SH3 › SH3 › SH3 › HR1_TOCA 0.82 65.0 5.23e-01 87.0% 47.4%
4984680 3962.1.1.1 ↗ alpha arrays › N-terminal helical domain in restriction-modification system methylation subunit-like › N-terminal helical domain in restriction-modification system methylation subunit › N-terminal helical domain in restriction-modification system methylation subunit › HsdM_N 0.81 65.0 4.50e-01 90.7% 27.6%
3995291 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.81 53.0 5.03e-01 70.4% 56.9%
4524416 5054.1.1.8 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans_2 0.80 62.0 4.89e-01 81.5% 42.9%
4888660 5067.1.1.1 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › ACR_tran 0.79 69.0 4.42e-01 98.1% 21.2%
3215052 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.77 51.0 4.32e-01 72.2% 43.5%
3256127 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.76 67.0 4.24e-01 100.0% 20.4%
5046197 5076.2.1.0 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ 0.76 66.0 4.14e-01 100.0% 19.8%
1201116 129.1.1.17 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › PGDH_C 0.75 63.0 5.79e-01 96.3% 87.3%
5065662 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.73 56.0 5.08e-01 81.5% 62.9%
136252 129.1.1.8 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › HMD 0.72 55.0 4.46e-01 83.3% 43.7%
5009561 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.71 57.0 4.90e-01 88.9% 55.3%