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NC_015288.1__YP_004324596.1__Syn1_230__00224

Bact-Vir

NC_015288.1__YP_004324596.1__Syn1_230__00224

Identity

Accession:
NC_015288 ↗
Kingdom:
phage

Quality

92.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Kyanoviridae› Vellamovirus› Prochlorococcus_phage_Syn1

TaxID: 444861

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 14-81
PDB
Domain cluster: rep: SRR1747018_scaffold_15_prodigal-single.1__X__X__00139__D3-68
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1cyyA02 2.70.20.10 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Topoisomerase I, domain 3 0.61 52.0 4.25e-01 94.1% 96.8%
1q45A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.58 46.0 2.96e-01 89.7% 61.4%
4xtvB02 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.56 37.0 4.14e-01 91.2% 97.9%
4lvnP00 3.30.70.2380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 46.0 4.41e-01 92.6% 93.8%
1x5hA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 37.0 3.07e-01 95.6% 37.1%
3kt9A00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.54 44.0 3.87e-01 91.2% 98.0%
1r8nA00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.53 43.0 3.31e-01 95.6% 86.5%
2hlcA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.52 35.0 3.09e-01 97.1% 44.2%
5yrzA01 3.30.160.250 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 41.0 3.69e-01 91.2% 82.9%
2rhqB06 3.30.70.380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ferrodoxin-fold anticodon-binding domain 0.52 41.0 3.86e-01 85.3% 96.4%
1jr7A00 3.60.130.10 Alpha Beta › 4-Layer Sandwich › Double-stranded beta-helix › Clavaminate synthase-like 0.51 41.0 2.72e-01 91.2% 39.2%
3k59A02 3.30.70.2250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › B family DNA polymerase, N domain, alpha/beta motif 0.50 41.0 4.14e-01 89.7% 98.5%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3589438 304.163.1.0 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.59 46.0 4.81e-01 92.6% 96.7%
4958814 3457.1.1.3 ↗ alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Arc_PepC_II 0.58 41.0 2.82e-01 94.1% 19.6%
3587970 11.1.4.36 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › SpaA 0.58 45.0 3.79e-01 92.6% 48.0%
5119 304.18.1.1 ↗ a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.56 48.0 4.18e-01 94.1% 87.5%
3987502 304.25.1.0 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain 0.56 47.0 3.51e-01 94.1% 97.7%
1291966 304.7.1.5 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors › SUB1_ProdP9 0.56 46.0 4.41e-01 92.6% 93.8%
3964033 4.1.1.28 ↗ beta barrels › SH3 › SH3 › SH3 › BPL_C 0.55 37.0 4.13e-01 89.7% 96.0%
5040672 304.8.1.9 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_6 0.54 47.0 4.27e-01 95.6% 93.3%
3665390 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.54 46.0 4.22e-01 94.1% 91.1%
3645411 223.1.1.79 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › GAF_NLP 0.54 47.0 3.27e-01 97.1% 74.5%
4963322 304.165.1.2 ↗ a+b two layers › Alpha-beta plaits › Uncharacterized protein Ta1207 › Uncharacterized protein Ta1207 › BAT 0.54 44.0 3.54e-01 92.6% 97.9%
3941701 304.28.1.1 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › ACR_tran 0.53 44.0 3.86e-01 94.1% 88.6%
3517068 3115.1.1.6 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › DUF4494 0.53 40.0 4.12e-01 95.6% 89.2%
4472468 1.1.1.7 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease › tRNA-synt_1_2 0.53 40.0 3.04e-01 83.8% 96.6%
4961375 304.165.1.0 ↗ a+b two layers › Alpha-beta plaits › Uncharacterized protein Ta1207 › Uncharacterized protein Ta1207 0.52 43.0 3.51e-01 92.6% 99.3%
4931923 304.5.1.7 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF2179 0.52 44.0 4.22e-01 95.6% 90.0%
4956311 2007.1.2.13 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › Peripla_BP_6 0.52 37.0 2.88e-01 76.5% 68.1%
3973565 304.28.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.52 43.0 3.84e-01 94.1% 92.0%
4147916 10.12.1.41 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › CsiD 0.51 42.0 2.75e-01 91.2% 91.6%
3658446 246.2.1.3 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos,Metallophos_C 0.51 40.0 2.70e-01 91.2% 57.5%
4308473 10.12.1.41 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › CsiD 0.51 42.0 2.73e-01 91.2% 88.3%
4974011 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.51 42.0 4.32e-01 94.1% 96.9%
3892842 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.50 35.0 3.61e-01 94.1% 78.5%
4935957 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.50 42.0 4.12e-01 95.6% 93.3%
5055089 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 34.0 3.14e-01 97.1% 51.6%