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NC_048765.1__YP_009845669.1__HWC21_gp013__00013

Bact-Vir

NC_048765.1__YP_009845669.1__HWC21_gp013__00013

Identity

Accession:
NC_048765 ↗
Kingdom:
phage

Quality

75.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Ackermannviridae› Vapseptimavirus› Vibrio_phage_VAP7

TaxID: 2584487

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 3-117
PDB
Domain cluster: representative
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2z0fA04 3.30.310.50 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Alpha-D-phosphohexomutase, C-terminal domain 0.66 46.0 4.85e-01 80.9% 80.4%
1uwvA03 2.40.50.1070 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.66 45.0 4.23e-01 100.0% 58.4%
3fg6A01 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.62 45.0 4.78e-01 94.8% 85.9%
1wduB00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.62 43.0 3.52e-01 72.2% 77.2%
4ua3A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.61 50.0 4.27e-01 88.7% 93.5%
3v97A03 3.30.750.80 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › RNA methyltransferase domain (HRMD) like 0.60 41.0 4.76e-01 80.0% 95.3%
1vybA00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.60 41.0 3.29e-01 70.4% 80.1%
2l72A00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.59 47.0 4.71e-01 96.5% 82.2%
2hqyA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.58 46.0 4.49e-01 85.2% 96.2%
2ffgA00 3.30.720.20 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Protein of unknown function DUF1797 0.57 29.0 3.44e-01 72.2% 68.8%
1zc3B00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.56 37.0 3.88e-01 74.8% 72.5%
2jkgA00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.56 38.0 3.41e-01 94.8% 48.5%
2dewX03 3.75.10.10 Alpha Beta › 5-stranded Propeller › L-arginine/glycine Amidinotransferase; Chain A › L-arginine/glycine Amidinotransferase; Chain A 0.55 50.0 3.48e-01 99.1% 87.3%
4ifdF00 3.30.230.70 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › GHMP Kinase, N-terminal domain 0.55 43.0 3.55e-01 84.3% 85.4%
1zsqA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 37.0 3.94e-01 79.1% 78.2%
1mixA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.54 32.0 3.56e-01 82.6% 73.1%
4hdoA03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.54 32.0 3.60e-01 81.7% 75.0%
2xf1A00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.53 45.0 4.43e-01 99.1% 87.7%
4nswA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 36.0 3.74e-01 87.0% 74.3%
4on1A01 2.40.128.470 Mainly Beta › Beta Barrel › Lipocalin › 0.52 37.0 3.50e-01 90.4% 59.7%
5u78C00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 39.0 3.90e-01 78.3% 80.2%
1e2tA03 2.40.128.150 Mainly Beta › Beta Barrel › Lipocalin › Cysteine proteinases 0.51 34.0 3.48e-01 87.0% 67.5%
3kxwA02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.51 43.0 4.26e-01 93.0% 99.2%
1yemB00 2.40.320.10 Mainly Beta › Beta Barrel › Hypothetical Protein Pfu-838710-001 › Hypothetical Protein Pfu-838710-001 0.51 42.0 3.83e-01 93.9% 92.2%
2lg1A02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 34.0 3.48e-01 81.7% 69.6%
1lfoA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.50 40.0 3.94e-01 85.2% 97.6%
1e5tA01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.50 45.0 3.20e-01 100.0% 77.6%
2f9iC00 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.50 42.0 3.11e-01 90.4% 76.1%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
None — 0.64 45.0 3.14e-01 100.0% 22.7%
3316722 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.61 43.0 3.58e-01 73.9% 68.5%
144307 224.1.1.1 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Cofilin_ADF 0.59 47.0 4.71e-01 96.5% 82.2%
None — 0.59 53.0 3.52e-01 100.0% 26.0%
3475799 220.1.1.7 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › IRS 0.58 39.0 3.80e-01 79.1% 62.4%
3176969 224.1.1.1 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Cofilin_ADF 0.58 48.0 4.81e-01 95.7% 88.3%
3787053 224.1.1.1 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Cofilin_ADF 0.57 49.0 4.62e-01 94.8% 92.9%
4034521 220.1.1.87 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_3 0.57 38.0 4.10e-01 84.3% 79.0%
3407758 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.56 41.0 4.12e-01 87.8% 74.8%
3224914 220.1.1.52 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › SNX17_FERM_C 0.56 37.0 3.78e-01 79.1% 67.8%
4944041 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.55 46.0 4.11e-01 89.6% 85.0%
3934850 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.55 37.0 3.69e-01 77.4% 65.8%
4002275 2003.1.5.53 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.55 45.0 3.08e-01 90.4% 25.7%
3255034 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.54 39.0 3.73e-01 90.4% 63.7%
3891317 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.54 42.0 3.94e-01 87.8% 68.1%
3548037 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.54 40.0 3.86e-01 85.2% 68.5%
3219161 220.1.1.50 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_17 0.53 35.0 3.64e-01 82.6% 70.0%
3917637 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.53 38.0 3.52e-01 86.1% 58.0%
3789025 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.53 39.0 3.72e-01 85.2% 65.2%
4967926 512.1.1.2 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd 0.52 38.0 3.77e-01 76.5% 81.6%
4946617 512.1.1.5 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_3rd 0.52 37.0 3.70e-01 71.3% 89.6%
3743890 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.52 38.0 3.56e-01 86.1% 60.7%
5058008 512.1.1.2 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd 0.52 37.0 3.67e-01 75.7% 81.6%
4979861 512.1.1.2 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd 0.52 38.0 3.82e-01 76.5% 86.1%
None — 0.52 46.0 3.27e-01 100.0% 45.6%
3176453 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.52 38.0 3.58e-01 84.3% 63.6%
None — 0.52 46.0 3.26e-01 100.0% 45.6%
3529648 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.52 40.0 3.76e-01 90.4% 67.1%
3262415 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.51 38.0 3.89e-01 88.7% 78.3%
3266298 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.51 40.0 3.85e-01 84.3% 71.6%
5001271 512.1.1.2 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd 0.51 38.0 3.69e-01 78.3% 90.8%
None — 0.51 42.0 2.97e-01 90.4% 35.7%
3974984 219.1.1.67 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › ElaD-SseL-like_C,ElaD_SseL-like_N 0.51 44.0 3.23e-01 96.5% 42.5%
4956104 512.1.1.2 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd 0.51 36.0 3.72e-01 73.9% 93.6%
3758839 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.50 39.0 3.51e-01 81.7% 64.4%
4492722 512.1.1.2 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd 0.50 36.0 3.39e-01 73.9% 72.1%
3175878 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.50 39.0 3.56e-01 86.1% 61.3%
5052132 512.1.1.0 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) 0.50 36.0 3.74e-01 75.7% 85.5%