←Back to structures

NC_048790.1__YP_009849036.1__HWC46_gp57__00057

Bact-Vir

NC_048790.1__YP_009849036.1__HWC46_gp57__00057

Identity

Accession:
NC_048790 ↗
Kingdom:
phage

Quality

75.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Samwavirus› Corynebacterium_phage_Lederberg

TaxID: 2588502

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 3-97
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7snsB01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.73 54.0 4.52e-01 77.9% 98.1%
2x9oA00 3.40.1500.20 Alpha Beta › 3-Layer(aba) Sandwich › oxygen-dependent coproporphyrinogen oxidase › 0.73 65.0 4.87e-01 97.9% 74.7%
4esqA00 3.40.1000.70 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › PknH-like extracellular domain 0.68 48.0 3.73e-01 71.6% 71.1%
3cmbA00 2.40.400.10 Mainly Beta › Beta Barrel › Acetoacetate decarboxylase-like › Acetoacetate decarboxylase-like 0.65 48.0 3.51e-01 77.9% 81.5%
3hdjA01 3.30.1780.10 Alpha Beta › 2-Layer Sandwich › ornithine cyclodeaminase, domain 1 › ornithine cyclodeaminase, domain 1 0.65 52.0 4.60e-01 87.4% 86.4%
2z3zA01 2.140.10.30 Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Dipeptidylpeptidase IV, N-terminal domain 0.63 46.0 3.04e-01 75.8% 54.4%
2e1bA02 3.30.980.10 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › Threonyl-trna Synthetase; Chain A, domain 2 0.63 40.0 3.63e-01 82.1% 47.3%
4r7rA00 3.30.1490.410 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Uncharacterised protein PF16224, DUF4883 0.62 43.0 3.99e-01 71.6% 81.1%
3pcrA01 3.10.450.460 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › EspG protein, N-terminal domain 0.61 47.0 4.74e-01 81.1% 90.4%
3c4bA02 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.61 41.0 4.63e-01 90.5% 97.0%
2w7qB00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.61 49.0 3.95e-01 86.3% 90.0%
3c6kA01 3.30.160.110 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Sirohaem synthase, central domain 0.60 46.0 4.69e-01 90.5% 81.9%
4ge6A00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.60 47.0 3.31e-01 84.2% 38.0%
3k7cA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 42.0 4.09e-01 73.7% 100.0%
4bumX00 2.40.160.10 Mainly Beta › Beta Barrel › Porin › Porin 0.59 51.0 3.65e-01 94.7% 92.6%
1zylA01 3.30.200.70 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › 0.58 38.0 4.28e-01 82.1% 91.4%
3oblA00 2.40.128.450 Mainly Beta › Beta Barrel › Lipocalin › 0.58 39.0 3.58e-01 71.6% 50.8%
7r97A02 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.57 39.0 4.43e-01 85.3% 100.0%
1icwB00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.55 29.0 3.35e-01 77.9% 69.7%
2mdrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.55 41.0 4.15e-01 90.5% 80.9%
2gexA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 48.0 4.16e-01 95.8% 95.9%
1nycA00 2.40.310.10 Mainly Beta › Beta Barrel › Staphostatins › beta-Barrel protease inhibitors 0.55 41.0 3.92e-01 81.1% 78.4%
3kkgA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 49.0 4.30e-01 100.0% 90.3%
1eotA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 27.0 3.01e-01 77.9% 58.1%
3ecfA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 48.0 4.36e-01 100.0% 97.7%
5aigA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 48.0 4.42e-01 100.0% 97.6%
3s27B01 3.10.450.330 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 37.0 3.34e-01 71.6% 61.7%
7b3aA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 41.0 3.58e-01 83.2% 86.6%
4kc5C03 3.10.129.110 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Polyketide synthase dehydratase 0.53 37.0 2.71e-01 74.7% 44.3%
1nr4C00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.53 26.0 3.01e-01 77.9% 62.1%
4lgqA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 47.0 4.23e-01 100.0% 97.7%
2dmyA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 38.0 3.81e-01 93.7% 76.3%
3dukA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.51 46.0 4.20e-01 100.0% 90.4%
2rjzA02 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.51 36.0 3.58e-01 72.6% 91.9%
4js8A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 37.0 3.88e-01 80.0% 93.3%
ECOD (42)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3787121 241.15.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain 0.76 66.0 6.05e-01 95.8% 95.2%
5003221 241.15.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain 0.73 65.0 6.17e-01 98.9% 99.1%
5044247 241.1.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone 0.69 60.0 4.61e-01 95.8% 94.9%
5006851 330.4.1.1 ↗ a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.68 50.0 5.44e-01 97.9% 98.6%
None — 0.68 56.0 4.17e-01 88.4% 55.7%
3658748 4099.1.1.14 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Knl1_RWD_C 0.67 51.0 5.11e-01 83.2% 97.0%
3581297 5084.5.1.3 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin › Porin_3 0.67 48.0 3.62e-01 74.7% 34.9%
4034136 2003.1.1.20 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › Epimerase 0.66 50.0 3.60e-01 82.1% 40.7%
3278301 9.2.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Avidin/Streptavidin › Avidin/Streptavidin 0.66 50.0 4.90e-01 81.1% 95.2%
5009577 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.66 50.0 4.63e-01 82.1% 83.2%
3228776 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.64 48.0 3.33e-01 77.9% 27.1%
5011833 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.64 46.0 4.44e-01 73.7% 67.6%
3813621 216.1.1.0 ↗ a+b two layers › UBC-like › UBC-like › UBC-like 0.64 49.0 4.97e-01 83.2% 100.0%
3446029 859.1.1.1 ↗ a+b two layers › The spindle assembly checkpoint protein mad2 › The spindle assembly checkpoint protein mad2 › The spindle assembly checkpoint protein mad2 › HORMA 0.64 55.0 4.72e-01 95.8% 88.4%
1678534 243.3.1.10 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › YPEB_PepSY1-2 0.64 44.0 4.60e-01 70.5% 84.9%
4031833 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.63 39.0 4.69e-01 73.7% 98.3%
3579354 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.63 47.0 4.56e-01 81.1% 98.2%
3505384 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.62 41.0 2.87e-01 100.0% 20.0%
3412551 4.1.1.326 ↗ beta barrels › SH3 › SH3 › SH3 › Chitin_bind_4 0.62 46.0 5.13e-01 81.1% 100.0%
4299014 222.1.1.12 ↗ a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase › PS-DH 0.62 47.0 3.94e-01 78.9% 80.0%
3533688 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.62 44.0 4.83e-01 90.5% 94.7%
3823787 220.1.1.74 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PIG-H 0.61 45.0 4.01e-01 78.9% 72.1%
4967355 4100.1.1.3 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › HicB_lk_antitox 0.61 36.0 4.16e-01 83.2% 84.6%
5059696 331.3.1.5 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc 0.60 53.0 4.67e-01 98.9% 73.8%
3690474 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.60 53.0 4.07e-01 97.9% 58.3%
5013679 3369.1.1.0 ↗ beta meanders › lysosome-associated membrane protein LAMP-3 › lysosome-associated membrane protein LAMP-3 › lysosome-associated membrane protein LAMP-3 0.60 52.0 5.00e-01 97.9% 91.8%
3345243 331.3.1.3 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › START 0.59 43.0 3.16e-01 75.8% 94.6%
5074243 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.59 45.0 4.53e-01 100.0% 83.2%
2724361 3188.1.1.1 ↗ beta duplicates or obligate multimers › cyanobacterial Oscillatoria Agardhii Agglutinin (OAA) › cyanobacterial Oscillatoria Agardhii Agglutinin (OAA) › cyanobacterial Oscillatoria Agardhii Agglutinin (OAA) › SBD 0.58 39.0 3.55e-01 71.6% 50.4%
3932463 5084.5.1.3 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin › Porin_3 0.57 51.0 3.60e-01 96.8% 91.2%
230344 3188.1.1.1 ↗ beta duplicates or obligate multimers › cyanobacterial Oscillatoria Agardhii Agglutinin (OAA) › cyanobacterial Oscillatoria Agardhii Agglutinin (OAA) › cyanobacterial Oscillatoria Agardhii Agglutinin (OAA) › SBD 0.57 44.0 3.23e-01 84.2% 92.1%
3204641 216.1.1.14 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › Med1 0.57 50.0 4.13e-01 100.0% 69.1%
4600963 3188.1.1.0 ↗ beta duplicates or obligate multimers › cyanobacterial Oscillatoria Agardhii Agglutinin (OAA) › cyanobacterial Oscillatoria Agardhii Agglutinin (OAA) › cyanobacterial Oscillatoria Agardhii Agglutinin (OAA) 0.56 42.0 3.13e-01 81.1% 84.9%
4001680 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 38.0 3.96e-01 71.6% 76.1%
3262671 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.55 45.0 2.73e-01 91.6% 20.4%
3449040 9.1.1.34 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › PAP_fibrillin 0.55 42.0 3.55e-01 85.3% 68.0%
868 9.6.1.2 ↗ beta barrels › Lipocalins/Streptavidin › Staphostatin › Staphostatin › Staphostatin_B 0.55 41.0 3.92e-01 81.1% 78.4%
3924545 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.54 45.0 4.18e-01 92.6% 88.3%
3587789 2.4.1.0 ↗ beta barrels › OB-fold › MOP-like › MOP-like 0.54 36.0 3.51e-01 91.6% 61.9%
2582168 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.53 44.0 3.82e-01 96.8% 98.8%
4478921 304.156.1.1 ↗ a+b two layers › Alpha-beta plaits › DNA translocase FtsK N-terminal domain › DNA translocase FtsK N-terminal domain › FtsK_alpha 0.52 34.0 3.53e-01 80.0% 72.9%
4967348 814.1.1.0 ↗ a+b two layers › Chorismate lyase › Chorismate lyase › Chorismate lyase 0.51 42.0 4.00e-01 89.5% 93.9%