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NC_049343.1__YP_009949260.1__HYO68_gp04__00004

Bact-Vir

NC_049343.1__YP_009949260.1__HYO68_gp04__00004

Identity

Accession:
NC_049343 ↗
Kingdom:
phage

Quality

77.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Peduoviridae› Gemsvirus› Escherichia_phage_500465-2

TaxID: 2716352

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 26-97
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF17289.9 best Terminase_6C 43.5 4.80e-11 100.0% 40.0%
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5m1pB00 3.30.420.240 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.87 77.0 5.51e-01 100.0% 36.0%
4ifeA02 3.30.420.240 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.76 69.0 4.79e-01 100.0% 49.8%
8dkrB01 3.30.420.240 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.75 64.0 4.53e-01 97.2% 51.5%
1p65A00 6.10.140.90 Special › Helix non-globular › Helix Hairpins › 0.70 37.0 4.16e-01 100.0% 66.7%
2wbnA00 3.30.420.280 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.69 56.0 4.22e-01 100.0% 36.5%
2af6A01 3.30.70.3180 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 39.0 3.23e-01 86.1% 32.8%
1wyuA02 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.63 53.0 3.73e-01 100.0% 86.6%
5hdiA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.61 45.0 2.89e-01 81.9% 57.9%
2mkyA00 3.30.70.1530 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hypothetical protein rpa1041 0.56 39.0 4.23e-01 100.0% 91.4%
3uoxB01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.56 36.0 2.42e-01 100.0% 15.9%
1fthA00 3.90.470.20 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain 0.56 32.0 2.74e-01 100.0% 35.9%
1js3A03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.55 43.0 3.95e-01 100.0% 64.9%
1vwxg01 6.20.370.70 Special › Other non-globular › Rhinovirus 14, subunit 4 › 0.54 28.0 3.59e-01 73.6% 91.9%
6hj2A00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.54 41.0 2.80e-01 81.9% 85.8%
1f02T00 4.10.820.10 Few Secondary Structures › Irregular › Translocated Intimin Receptor; Chain T › Translocated intimin receptor, central domain 0.53 35.0 3.62e-01 100.0% 72.7%
2dgrA01 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.53 41.0 4.28e-01 98.6% 94.0%
1yj7B01 3.30.70.1530 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hypothetical protein rpa1041 0.53 37.0 3.74e-01 98.6% 76.1%
5mmiG01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.51 44.0 4.25e-01 98.6% 89.3%
4i8oA01 3.30.310.240 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Bacterial toxin RNase RnlA/LsoA, N-terminal domain 0.50 43.0 4.04e-01 98.6% 95.5%
3ossD00 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.50 37.0 2.99e-01 95.8% 36.9%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3946809 2484.1.1.77 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Terminase_6C 0.90 86.0 5.90e-01 100.0% 35.6%
5031041 2484.1.1.77 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Terminase_6C 0.86 77.0 5.42e-01 100.0% 34.9%
4988089 2484.1.1.77 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Terminase_6C 0.84 78.0 5.61e-01 100.0% 42.1%
1949055 2484.1.1.77 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Terminase_6C 0.84 73.0 5.30e-01 100.0% 35.8%
5083931 2484.1.1.77 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Terminase_6C 0.83 73.0 5.37e-01 100.0% 38.9%
4031863 2484.1.1.86 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › TerL_nuclease 0.77 67.0 4.62e-01 100.0% 30.0%
5082827 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.75 68.0 4.83e-01 100.0% 41.0%
4033330 2484.1.1.86 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › TerL_nuclease 0.75 65.0 4.63e-01 100.0% 32.6%
3590721 2484.1.1.86 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › TerL_nuclease 0.71 63.0 4.53e-01 100.0% 34.3%
4943824 205.1.1.119 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Nitroreductase 0.65 45.0 4.59e-01 100.0% 74.3%
5050195 205.1.1.16 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Fer4_7 0.61 39.0 3.66e-01 98.6% 49.5%
4605906 205.1.1.42 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Fer4, Fer4_6, Fer4_7 0.61 39.0 4.16e-01 98.6% 78.3%
4043003 601.7.1.6 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › GlnD_UR_UTase 0.59 49.0 3.90e-01 100.0% 84.7%
3530542 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.59 50.0 3.33e-01 100.0% 80.6%
3483549 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.56 48.0 3.16e-01 100.0% 82.6%
3908432 4291.1.1.1 ↗ beta barrels › Oxysterol-binding protein › Oxysterol-binding protein › Oxysterol-binding protein › Oxysterol_BP 0.56 41.0 2.66e-01 81.9% 72.0%
4510171 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.55 46.0 3.11e-01 100.0% 82.3%
3364025 101.1.2.245 ↗ alpha arrays › HTH › HTH › winged helix domain › PORR 0.55 46.0 3.16e-01 100.0% 92.8%
4977332 205.1.1.16 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Fer4_7 0.55 38.0 3.84e-01 100.0% 74.3%
5077285 131.1.1.3 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD 0.55 45.0 2.90e-01 97.2% 29.0%
3714022 304.24.1.3 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › EFG_III 0.54 37.0 4.00e-01 100.0% 86.7%
3379132 101.1.2.245 ↗ alpha arrays › HTH › HTH › winged helix domain › PORR 0.54 45.0 3.03e-01 100.0% 94.0%
4033708 101.1.9.5 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › B5 0.54 36.0 3.37e-01 100.0% 54.4%
3287147 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.54 46.0 3.58e-01 97.2% 81.8%
4968843 131.1.1.3 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD 0.53 45.0 2.95e-01 98.6% 49.6%
3603146 2008.1.1.95 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DpnII 0.53 37.0 2.50e-01 73.6% 40.7%
3280153 4019.1.1.1 ↗ alpha complex topology › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.52 46.0 2.93e-01 100.0% 29.0%
3989311 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.52 42.0 3.57e-01 93.1% 93.8%
4028109 3525.1.1.0 ↗ alpha arrays › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain 0.52 39.0 4.07e-01 100.0% 93.8%
3994831 5076.1.1.1 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.52 41.0 2.87e-01 93.1% 52.3%
2033706 7592.1.1.5 ↗ a/b three-layered sandwiches › CARF (CRISPR-associated Rossmann fold) domains › CARF (CRISPR-associated Rossmann fold) domains › CARF (CRISPR-associated Rossmann fold) domains › Csx1_CARF 0.52 41.0 2.67e-01 86.1% 92.4%
3226546 1202.1.1.1 ↗ few secondary structure elements › barrettide A › barrettide A › barrettide A › NRF 0.51 35.0 2.81e-01 72.2% 65.6%
4611198 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.51 44.0 4.09e-01 100.0% 78.9%
3948359 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.51 38.0 4.08e-01 98.6% 98.3%
3592627 601.23.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › DNA repair protein MutS, domain III › DNA repair protein MutS, domain III 0.51 42.0 3.00e-01 98.6% 62.3%
5083220 1075.1.2.0 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain 0.51 42.0 2.65e-01 97.2% 68.0%