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NC_029119.1__YP_009226686.1__AXJ01_gp010__00010

Bact-Vir

NC_029119.1__YP_009226686.1__AXJ01_gp010__00010

Identity

Accession:
NC_029119 ↗
Kingdom:
phage

Quality

71.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Staphylococcus_phage_SPbeta-like

TaxID: 1732063

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 14-60
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1q7sA00 3.40.1490.10 Alpha Beta › 3-Layer(aba) Sandwich › Bit1 › Bit1 0.86 53.0 3.85e-01 100.0% 25.6%
3t5tB01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.80 54.0 3.24e-01 93.6% 11.5%
1fuiA03 3.20.14.10 Alpha Beta › Alpha-Beta Barrel › L-fucose Isomerase; Chain A, domain 3 › L-fucose/L-arabinose isomerase, C-terminal 0.70 48.0 3.00e-01 74.5% 13.5%
2jt1A00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.68 38.0 3.32e-01 87.2% 35.2%
1y96D00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.65 54.0 4.53e-01 93.6% 98.8%
3i3lA02 3.30.390.160 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.65 50.0 3.77e-01 87.2% 98.4%
3obaA03 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.64 38.0 2.30e-01 93.6% 8.7%
2qrdE01 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.63 48.0 3.17e-01 80.9% 93.3%
5mu3B00 3.40.50.12050 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.59 52.0 3.58e-01 100.0% 92.0%
2n8lA00 3.30.310.210 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.56 47.0 3.15e-01 95.7% 54.5%
3evzA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 34.0 2.37e-01 85.1% 16.3%
3rhtA00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.56 38.0 2.45e-01 74.5% 23.4%
7o4xA01 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 32.0 2.54e-01 83.0% 23.2%
3ub1A01 3.10.450.540 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 44.0 3.16e-01 89.4% 69.9%
5dymA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.55 47.0 3.61e-01 91.5% 51.0%
3ke2B00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.54 45.0 3.53e-01 89.4% 67.7%
2c7yA00 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.53 49.0 2.82e-01 100.0% 14.6%
4lecA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 31.0 2.07e-01 74.5% 11.9%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.52 47.0 2.95e-01 100.0% 46.9%
2p5zX02 3.55.50.10 Alpha Beta › 3-Layer(bab) Sandwich › Phage tail protein beta-alpha-beta fold › Baseplate protein-like domains 0.51 35.0 2.83e-01 74.5% 43.3%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3443252 263.1.1.0 ↗ a+b three layers › SRF-like › SRF-like › SRF-like 0.88 48.0 4.99e-01 85.1% 57.8%
3276244 3346.1.1.0 ↗ a+b two layers › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 0.88 53.0 3.50e-01 100.0% 17.1%
3652838 252.1.1.0 ↗ a+b two layers › DNA-binding domain › Methyl-CpG-binding domain, MBD › Methyl-CpG-binding domain, MBD 0.85 47.0 3.20e-01 85.1% 18.1%
3889952 263.1.1.0 ↗ a+b three layers › SRF-like › SRF-like › SRF-like 0.83 53.0 4.57e-01 97.9% 44.3%
5040519 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.77 60.0 3.77e-01 89.4% 40.0%
3865493 5001.1.1.5 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3 0.71 53.0 3.29e-01 83.0% 96.4%
4000297 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 0.70 56.0 3.41e-01 93.6% 12.9%
3649913 5050.1.1.58 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › NFD4_C 0.67 58.0 3.98e-01 100.0% 37.1%
None — 0.67 56.0 3.43e-01 97.9% 17.2%
3468311 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.67 40.0 2.35e-01 85.1% 7.4%
3228638 5001.1.1.41 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw 0.66 52.0 3.14e-01 93.6% 12.2%
3619358 5001.1.1.111 ↗ 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, 7TM_GPCR_Srw 0.66 55.0 3.31e-01 97.9% 14.6%
3719487 2484.1.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin 0.66 50.0 3.03e-01 100.0% 14.1%
3212521 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 0.66 54.0 3.33e-01 100.0% 20.6%
3621671 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 0.64 51.0 3.10e-01 95.7% 12.7%
3252212 283.2.1.0 ↗ a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like 0.64 55.0 4.62e-01 93.6% 66.7%
4943839 7573.1.1.4 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase 0.63 57.0 3.64e-01 100.0% 65.3%
3598294 226.1.1.0 ↗ a+b two layers › POZ domain › POZ domain › POZ domain 0.63 50.0 3.65e-01 87.2% 38.4%
1278602 223.3.1.1 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.63 35.0 3.29e-01 83.0% 41.7%
3934845 5001.1.1.66 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Srg 0.63 52.0 3.22e-01 93.6% 16.4%
3585877 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 0.62 48.0 3.16e-01 93.6% 17.6%
5056061 225.2.1.1 ↗ a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › Uncharacterized protein DIP2311 middle domain › Uncharacterized protein DIP2311 middle domain › HATPase_c_4 0.61 49.0 3.21e-01 97.9% 51.8%
4944735 101.1.2.542 ↗ alpha arrays › HTH › HTH › winged helix domain › ATPase_2 0.59 45.0 3.28e-01 83.0% 64.8%
4972171 301.2.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › PurM N-terminal domain-like › PurM N-terminal domain-like › AIRS 0.59 43.0 2.94e-01 76.6% 32.5%
3934910 5001.1.1.44 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srv 0.58 49.0 3.21e-01 97.9% 21.7%
3934573 2485.1.1.3 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Glutaredoxin 0.57 41.0 3.18e-01 83.0% 91.2%
2816648 3398.1.1.2 ↗ a/b three-layered sandwiches › STING C-terminal domain › STING C-terminal domain › STING C-terminal domain › prok_STING 0.57 53.0 3.49e-01 100.0% 60.5%
3599395 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.56 48.0 2.81e-01 95.7% 35.2%
3783767 2484.1.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin 0.56 48.0 2.97e-01 95.7% 30.5%
3324101 207.1.1.47 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1,LRR_6 0.55 43.0 2.49e-01 83.0% 10.9%
4996628 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 48.0 3.02e-01 91.5% 68.4%
4121545 140.1.1.0 ↗ alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.53 50.0 3.13e-01 100.0% 44.3%
3915100 109.3.1.2 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank,Ank_2 0.52 46.0 3.11e-01 95.7% 56.9%
3324152 221.4.1.0 ↗ a+b two layers › beta-Grasp › Nudix › Nudix 0.52 38.0 3.15e-01 87.2% 42.9%
4490625 221.4.1.0 ↗ a+b two layers › beta-Grasp › Nudix › Nudix 0.52 40.0 2.70e-01 89.4% 65.2%
3531794 2484.1.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin 0.51 41.0 2.84e-01 97.9% 59.5%
4970460 225.2.1.1 ↗ a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › Uncharacterized protein DIP2311 middle domain › Uncharacterized protein DIP2311 middle domain › HATPase_c_4 0.50 42.0 2.73e-01 97.9% 29.8%