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NC_009018.1__YP_001039902.1__phi3396_15__00015

Bact-Vir

NC_009018.1__YP_001039902.1__phi3396_15__00015

Identity

Accession:
NC_009018 ↗
Kingdom:
phage

Quality

77.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Streptococcus_phage_phi3396

TaxID: 423476

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 2-52
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00436.32 best SSB 55.7 6.20e-15 100.0% 49.0%
CATH (31)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5odnC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.87 75.0 5.98e-01 98.0% 49.0%
2vw9B00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.81 69.0 5.52e-01 98.0% 47.6%
6rupA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.78 66.0 5.25e-01 100.0% 45.9%
1se8A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.77 60.0 4.63e-01 98.0% 38.7%
1dw9A02 3.30.1160.10 Alpha Beta › 2-Layer Sandwich › Cyanate Lyase; Chain: A, domain 2 › Cyanate lyase, C-terminal domain 0.69 49.0 4.51e-01 82.4% 57.4%
4zg5A00 3.40.1210.10 Alpha Beta › 3-Layer(aba) Sandwich › Stationary-phase Survival Protein Sure Homolog; Chain: A, › Survival protein SurE-like phosphatase/nucleotidase 0.67 47.0 3.01e-01 74.5% 86.6%
1novA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.63 54.0 3.36e-01 100.0% 64.1%
1bd3A00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.63 44.0 2.96e-01 76.5% 57.6%
3gw6A03 3.30.2460.10 Alpha Beta › 2-Layer Sandwich › Endo-n-acetylneuraminidase fold › Endo-n-acetylneuraminidase domain 0.61 37.0 3.58e-01 84.3% 50.9%
1xttB00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.61 42.0 2.92e-01 76.5% 71.2%
3jafA01 2.70.170.10 Mainly Beta › Distorted Sandwich › Acetylcholine Binding Protein; Chain: A, › Neurotransmitter-gated ion-channel ligand-binding domain 0.58 46.0 3.08e-01 88.2% 36.5%
3anzC00 2.70.240.10 Mainly Beta › Distorted Sandwich › Leukocidin-like › Leukocidin/porin MspA 0.58 41.0 2.54e-01 74.5% 46.3%
1ilvA00 3.40.1210.10 Alpha Beta › 3-Layer(aba) Sandwich › Stationary-phase Survival Protein Sure Homolog; Chain: A, › Survival protein SurE-like phosphatase/nucleotidase 0.58 39.0 2.64e-01 74.5% 54.7%
1agqB00 2.10.90.10 Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines 0.57 47.0 3.90e-01 94.1% 95.8%
5ib9A01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.57 41.0 2.60e-01 76.5% 23.5%
1fm2B03 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.57 47.0 4.37e-01 94.1% 74.2%
1nz8A00 3.30.70.940 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › NusG, N-terminal domain 0.57 48.0 3.76e-01 100.0% 48.7%
5f3bD00 2.10.90.10 Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines 0.57 47.0 3.86e-01 100.0% 95.1%
4griA02 3.90.800.10 Alpha Beta › Alpha-Beta Complex › Glutamyl-tRNA Synthetase; domain 3 › Glutamyl-tRNA Synthetase; Domain 3 0.56 43.0 3.36e-01 88.2% 69.9%
6nvxB02 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.56 46.0 4.05e-01 92.2% 89.6%
2i5tA00 3.10.490.10 Alpha Beta › Roll › Hypothetical upf0131 protein ytfp › Gamma-glutamyl cyclotransferase-like 0.56 43.0 3.10e-01 90.2% 45.6%
4yfbC02 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.56 47.0 4.17e-01 98.0% 91.0%
4wksC02 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.54 47.0 4.17e-01 100.0% 90.7%
1aroP05 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.53 38.0 2.59e-01 78.4% 21.1%
1d5cA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 45.0 3.12e-01 94.1% 34.0%
2ogjA01 2.30.40.10 Mainly Beta › Roll › Urease, subunit C; domain 1 › Urease, subunit C, domain 1 0.52 39.0 3.03e-01 82.4% 77.4%
3iabB01 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.52 42.0 3.47e-01 94.1% 89.9%
3pp9B00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 41.0 2.94e-01 96.1% 52.3%
5xc5A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 45.0 3.13e-01 100.0% 35.9%
3u83A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 38.0 3.16e-01 84.3% 89.1%
4jphB00 2.10.90.10 Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines 0.50 39.0 3.28e-01 100.0% 76.6%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4170378 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.90 80.0 6.01e-01 98.0% 43.5%
159268 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.89 78.0 5.06e-01 98.0% 23.8%
4137219 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.88 78.0 6.19e-01 98.0% 50.0%
3924081 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.87 77.0 5.52e-01 98.0% 35.7%
3375524 2.1.1.229 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PF30940 0.87 77.0 5.77e-01 98.0% 41.7%
3995685 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.87 76.0 5.83e-01 98.0% 45.0%
4277262 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.86 75.0 5.71e-01 98.0% 42.4%
3616890 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.86 75.0 5.72e-01 98.0% 44.3%
2541776 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.84 74.0 5.76e-01 100.0% 46.8%
3839607 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.83 72.0 5.49e-01 98.0% 42.4%
3690510 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.81 72.0 5.58e-01 100.0% 49.1%
3491964 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.81 70.0 5.21e-01 100.0% 38.5%
4047115 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.80 71.0 5.68e-01 100.0% 51.0%
4680392 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.80 67.0 5.29e-01 98.0% 44.5%
3741507 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.79 69.0 5.54e-01 100.0% 51.0%
3508135 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.78 66.0 5.78e-01 100.0% 62.5%
4044404 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.78 66.0 5.28e-01 98.0% 47.6%
2330653 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.77 68.0 5.53e-01 100.0% 54.3%
4084495 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.74 63.0 5.08e-01 100.0% 48.6%
3587268 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.71 60.0 4.66e-01 100.0% 71.7%
3365669 2.1.1.229 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PF30940 0.68 57.0 4.60e-01 100.0% 46.4%
3623409 11.1.5.6 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › T-box 0.66 47.0 3.24e-01 78.4% 56.9%
3797440 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.65 47.0 3.22e-01 78.4% 57.4%
3785339 3294.1.1.1 ↗ alpha complex topology › FAS type I helical domain › FAS type I helical domain › FAS type I helical domain › FAS_I_H 0.65 44.0 2.71e-01 70.6% 52.5%
3608173 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.65 52.0 3.11e-01 90.2% 21.6%
3583095 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.64 57.0 4.52e-01 100.0% 51.0%
4315154 3294.1.1.1 ↗ alpha complex topology › FAS type I helical domain › FAS type I helical domain › FAS type I helical domain › FAS_I_H 0.63 43.0 2.90e-01 72.5% 67.8%
4954828 12.1.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.60 36.0 3.66e-01 92.2% 60.0%
4474382 242.1.1.7 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.60 48.0 3.67e-01 90.2% 52.0%
4983447 3457.1.1.3 ↗ alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Arc_PepC_II 0.60 47.0 2.95e-01 84.3% 21.1%
3391162 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.59 49.0 3.17e-01 96.1% 84.7%
3387999 2003.2.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Formate dehydrogenase/DMSO reductase, domains 2 and 3 › Formate dehydrogenase/DMSO reductase, domains 2 and 3 0.59 45.0 3.08e-01 92.2% 37.7%
1943 11.13.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Leukocidin-like › Leukocidin-like › Leukocidin 0.58 41.0 2.54e-01 74.5% 46.4%
4487061 328.8.1.1 ↗ a+b two layers › IF3-like › Schlafen 8 › Schlafen 8 › SLFN_AlbA_2 0.58 47.0 3.32e-01 92.2% 57.6%
3932950 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.58 44.0 2.69e-01 84.3% 16.4%
None — 0.57 40.0 2.52e-01 74.5% 46.4%
4551865 391.1.2.27 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related › Cys_knot 0.57 48.0 3.54e-01 100.0% 54.0%
4859280 385.1.1.2 ↗ few secondary structure elements › Cystine-knot cytokines › Cystine-knot cytokines › Cystine-knot cytokines › TGF_beta 0.56 46.0 4.18e-01 96.1% 95.8%
4160831 109.4.1.1255 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Adaptin_N, Cnd1 0.55 39.0 2.23e-01 78.4% 29.1%
3225113 385.1.1.0 ↗ few secondary structure elements › Cystine-knot cytokines › Cystine-knot cytokines › Cystine-knot cytokines 0.54 43.0 3.61e-01 100.0% 98.1%
4315296 5054.1.1.7 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › KdpA 0.53 38.0 2.88e-01 78.4% 32.3%
4025866 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.53 44.0 2.68e-01 96.1% 96.8%
3268156 223.2.1.4 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › DENN,uDENN 0.52 40.0 2.89e-01 94.1% 58.9%
4815223 2485.3.1.7 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside 0.51 36.0 2.49e-01 74.5% 74.4%
3947849 3609.1.1.4 ↗ alpha arrays › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › ArdcN 0.50 41.0 3.47e-01 92.2% 52.8%