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NC_028805.1__YP_009199218.1__AVV11_gp034__00157

Bact-Vir

NC_028805.1__YP_009199218.1__AVV11_gp034__00157

Identity

Accession:
NC_028805 ↗
Kingdom:
phage

Quality

90.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Jenstvirus› Brevibacillus_phage_Jenst

TaxID: 1691954

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 119-170
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1m0wA03 1.10.1080.10 Mainly Alpha › Orthogonal Bundle › Glutathione Synthetase; Chain A, domain 3 › Glutathione Synthetase; Chain A, domain 3 0.57 42.0 3.61e-01 78.8% 57.6%
3l4gC01 3.30.1370.240 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.51 42.0 3.50e-01 100.0% 66.7%
3qslA02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.51 43.0 3.36e-01 94.2% 64.9%
2i44B00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.51 34.0 2.23e-01 75.0% 89.6%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3475426 103.12.1.0 ↗ alpha arrays › RuvA-C › ANTAR domain › ANTAR domain 0.77 48.0 4.33e-01 94.2% 47.1%
3399392 101.1.1.112 ↗ alpha arrays › HTH › HTH › Three-helical HTH › MADF_DNA_bdg 0.63 51.0 4.76e-01 96.2% 72.3%
D2 medium residues 1-61
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ja8601 3.30.1640.10 Alpha Beta › 2-Layer Sandwich › mini-chromosome maintenance (MCM) complex, chain A, domain 1 › mini-chromosome maintenance (MCM) complex, chain A, domain 1 0.64 51.0 4.38e-01 91.8% 87.6%
4gywA05 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.59 46.0 3.45e-01 95.1% 32.3%
6c5cA01 3.40.50.1970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.59 47.0 3.37e-01 93.4% 29.7%
3f8tA01 1.10.260.200 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › 0.59 47.0 4.35e-01 95.1% 96.4%
2c5sA01 3.30.2130.30 Alpha Beta › 2-Layer Sandwich › VC0802-like › 0.56 45.0 3.33e-01 91.8% 33.1%
2gjlA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.56 46.0 2.97e-01 95.1% 20.7%
3tfxA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.55 48.0 3.28e-01 100.0% 47.2%
4k28A02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.55 44.0 3.43e-01 100.0% 37.4%
4kr6A01 3.30.2130.30 Alpha Beta › 2-Layer Sandwich › VC0802-like › 0.55 43.0 3.26e-01 91.8% 33.9%
6hcdD00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.54 45.0 3.56e-01 95.1% 48.1%
2fe1A00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.54 39.0 3.12e-01 78.7% 93.8%
ECOD (15)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5023130 3003.1.1.0 ↗ a+b complex topology › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) 0.71 58.0 5.26e-01 91.8% 100.0%
3708460 3003.1.1.1 ↗ a+b complex topology › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › MCM_N 0.69 56.0 4.48e-01 93.4% 90.8%
5026914 3003.1.1.1 ↗ a+b complex topology › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › MCM_N 0.69 55.0 4.86e-01 91.8% 98.9%
3496396 3003.1.1.0 ↗ a+b complex topology › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) 0.68 56.0 4.23e-01 93.4% 97.4%
4883156 3003.1.1.1 ↗ a+b complex topology › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › MCM_N 0.65 47.0 4.17e-01 80.3% 88.5%
1628547 3003.1.1.2 ↗ a+b complex topology › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › N-terminal subdomain in DNA replication initiator (cdc21/cdc54) › Mcm-like_N 0.59 47.0 4.35e-01 95.1% 96.4%
3486959 2007.1.16.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Iron-sulphur enzyme Dph2 0.58 47.0 4.07e-01 95.1% 56.0%
3198747 2007.1.16.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Iron-sulphur enzyme Dph2 › Diphthamide_syn 0.56 46.0 3.69e-01 95.1% 46.2%
3738402 7000.1.1.2 ↗ alpha arrays › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › RBD_LARS1 0.54 39.0 3.80e-01 83.6% 70.0%
4937900 2006.1.4.50 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › DUF3368 0.53 38.0 2.90e-01 78.7% 65.0%
3399759 4143.1.1.1 ↗ a+b two layers › THUMP domain-like › THUMP domain-like › THUMP domain-like › THUMP 0.53 42.0 3.65e-01 91.8% 56.0%
4323920 7000.1.1.0 ↗ alpha arrays › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS 0.52 39.0 3.84e-01 83.6% 78.5%
3437971 145.1.1.1 ↗ alpha arrays › F-box domain › F-box domain › F-box domain › F-box 0.51 35.0 3.14e-01 72.1% 83.3%
5051072 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.51 43.0 3.39e-01 95.1% 48.9%
3756179 207.1.1.1 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1 0.50 41.0 2.84e-01 96.7% 32.5%
D3 medium residues 62-114
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5znqA00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.63 49.0 3.52e-01 92.5% 97.3%
3ja8601 3.30.1640.10 Alpha Beta › 2-Layer Sandwich › mini-chromosome maintenance (MCM) complex, chain A, domain 1 › mini-chromosome maintenance (MCM) complex, chain A, domain 1 0.60 50.0 4.16e-01 100.0% 92.4%
3rotA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.56 44.0 3.44e-01 100.0% 36.5%
5jicA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.55 46.0 3.13e-01 98.1% 26.9%
2ox6D00 1.10.3100.10 Mainly Alpha › Orthogonal Bundle › Putative cytoplasmic protein › Putative cytoplasmic protein 0.54 45.0 3.32e-01 100.0% 46.6%
3clqA03 1.10.10.660 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › conserved protein of unknown function from Enterococcus faecalis V583 0.53 41.0 3.85e-01 90.6% 70.0%
3qi7A02 3.40.50.11390 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.52 44.0 3.09e-01 98.1% 29.9%
2ac4A02 3.40.50.1400 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 43.0 3.17e-01 98.1% 35.9%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4069072 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.62 42.0 3.35e-01 92.5% 35.2%
4884074 2003.4.1.1 ↗ a/b three-layered sandwiches › Rossmann-like › Tryptophan synthase beta subunit-like PLP-dependent enzymes › Tryptophan synthase beta subunit-like PLP-dependent enzymes › PALP 0.54 42.0 4.23e-01 98.1% 88.7%
4492083 309.1.2.3 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › ThrRS/AlaRS editing domain › tRNA-Thr_ED 0.54 47.0 3.58e-01 98.1% 45.6%
3913700 7579.1.1.74 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › C2orf69 0.53 44.0 2.83e-01 100.0% 28.1%