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NC_070625.1__YP_010644470.1__PPK16_gp69__00069

Bact-Vir

NC_070625.1__YP_010644470.1__PPK16_gp69__00069

Identity

Accession:
NC_070625 ↗
Kingdom:
phage

Quality

80.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Trautnerviridae› Rivavirus› Bacillus_phage_049ML001

TaxID: 2601660

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 3-103
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2pk8A00 3.30.2320.10 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain 0.75 61.0 6.37e-01 94.1% 93.6%
4ebjA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.73 52.0 4.79e-01 100.0% 58.6%
3bjqA00 3.90.1690.10 Alpha Beta › Alpha-Beta Complex › phage-related protein like fold › phage-related protein like domain 0.67 58.0 4.13e-01 95.0% 52.4%
1yueA03 3.30.2320.40 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › 0.65 56.0 5.30e-01 94.1% 77.7%
6j09A02 3.10.20.310 Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac 0.63 29.0 3.26e-01 71.3% 56.4%
3bqwA02 3.30.1930.10 Alpha Beta › 2-Layer Sandwich › capsid protein of prophage fold › capsid protein of prophage domain 0.59 50.0 4.53e-01 94.1% 92.7%
1vk3A02 3.30.1330.10 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › PurM-like, N-terminal domain 0.58 41.0 3.74e-01 74.3% 57.8%
3e0jA01 3.60.21.50 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › 0.55 45.0 3.29e-01 90.1% 75.9%
1p1jA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.54 45.0 4.36e-01 90.1% 100.0%
5xc5A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 39.0 3.28e-01 76.2% 47.9%
3f4lA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.52 45.0 3.62e-01 100.0% 70.4%
3obyA03 3.30.1330.30 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Ribosomal protein L30/S12 0.52 36.0 3.64e-01 70.3% 71.7%
2bcqA03 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.52 48.0 4.47e-01 100.0% 87.0%
1udxA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 37.0 3.13e-01 75.2% 45.4%
3htxD03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 44.0 3.49e-01 100.0% 90.5%
2r9yA01 3.30.497.10 Alpha Beta › 2-Layer Sandwich › Antithrombin; Chain I, domain 2 › Antithrombin, subunit I, domain 2 0.50 44.0 3.47e-01 99.0% 75.8%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5083777 2485.3.1.3 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.77 64.0 4.49e-01 88.1% 46.3%
11367 2485.3.1.6 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › ENCP4 0.75 61.0 6.37e-01 94.1% 93.6%
3949155 2485.3.1.11 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › SrpI-like 0.69 60.0 4.39e-01 94.1% 52.5%
4306281 298.4.1.0 ↗ a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E 0.68 48.0 4.93e-01 96.0% 76.8%
4960220 298.4.1.1 ↗ a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E 0.68 47.0 4.55e-01 96.0% 63.5%
4208534 298.4.1.1 ↗ a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E 0.67 46.0 4.45e-01 96.0% 62.6%
3967169 298.4.1.2 ↗ a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › FliH 0.63 45.0 4.24e-01 85.1% 60.0%
3279291 211.1.1.0 ↗ a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.61 43.0 4.80e-01 82.2% 98.7%
4638799 298.4.1.0 ↗ a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E 0.61 45.0 4.24e-01 96.0% 63.2%
3598134 301.7.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › YjgF-like › YjgF-like 0.60 43.0 4.41e-01 74.3% 82.1%
3948704 211.1.1.0 ↗ a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.59 41.0 4.64e-01 79.2% 100.0%
4939241 301.9.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › HypA Ni-binding domain › HypA Ni-binding domain › HypA 0.58 41.0 4.52e-01 74.3% 96.2%
3703007 7574.1.1.2 ↗ a/b three-layered sandwiches › Thiamin diphosphate-binding fold (THDP-binding) › Thiamin diphosphate-binding fold (THDP-binding) › Thiamin diphosphate-binding fold (THDP-binding) › E1_dh 0.57 51.0 3.30e-01 100.0% 46.0%
3595923 7574.1.1.0 ↗ a/b three-layered sandwiches › Thiamin diphosphate-binding fold (THDP-binding) › Thiamin diphosphate-binding fold (THDP-binding) › Thiamin diphosphate-binding fold (THDP-binding) 0.57 50.0 3.30e-01 100.0% 47.5%
5031686 3008.1.1.0 ↗ a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.56 43.0 4.53e-01 100.0% 93.2%
3675288 246.2.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.56 44.0 3.21e-01 86.1% 86.0%
4097524 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.56 31.0 3.64e-01 79.2% 78.6%
1560725 3974.1.1.1 ↗ beta duplicates or obligate multimers › EBNA-2 N-terminal dimerization (END) domain › EBNA-2 N-terminal dimerization (END) domain › EBNA-2 N-terminal dimerization (END) domain › EBNA2_N 0.56 23.0 2.82e-01 73.3% 56.5%
3517917 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.55 27.0 3.33e-01 77.2% 73.8%
3500712 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.54 39.0 3.21e-01 75.2% 43.9%
4090143 298.1.1.38 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › OpcA_G6PD_C 0.53 44.0 3.73e-01 93.1% 78.9%
4194680 301.1.1.5 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › SpoU_sub_bind 0.53 33.0 3.82e-01 96.0% 90.0%
3265408 2004.1.1.453 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1, NOG1 0.52 38.0 3.11e-01 75.2% 44.3%
4994706 301.1.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › Ribosomal_L7Ae 0.52 37.0 3.73e-01 74.3% 74.0%
3963609 301.1.1.6 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › MRM3-like_sub_bind 0.52 34.0 3.44e-01 94.1% 65.7%
4384861 2004.1.1.14 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › GTP_EFTU 0.51 37.0 2.60e-01 76.2% 50.4%