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NC_021073.1__YP_007878109.1__VPDG_00137__00136

Bact-Vir

NC_021073.1__YP_007878109.1__VPDG_00137__00136

Identity

Accession:
NC_021073 ↗
Kingdom:
phage

Quality

67.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_henriette_12B8

TaxID: 573174

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 23-158
PDB
Domain cluster: rep: OL597546.1__UUB23297.1__X__00001__D24-147
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF04586.23 best Peptidase_S78 78.9 6.90e-22 100.0% 83.6%
D2 high residues 233-314
PDB
Domain cluster: representative
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4r80A00 3.10.450.630 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.71 55.0 5.69e-01 82.9% 97.4%
4orlA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.69 51.0 4.65e-01 79.3% 97.3%
4qrlA00 2.40.128.280 Mainly Beta › Beta Barrel › Lipocalin › 0.67 56.0 5.05e-01 90.2% 79.1%
3ebkB00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.64 55.0 4.39e-01 95.1% 48.8%
2kf2A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.64 54.0 4.33e-01 93.9% 49.1%
1uyjA01 3.30.360.60 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › 0.63 46.0 4.69e-01 92.7% 78.0%
2ns9A01 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.62 52.0 4.30e-01 92.7% 50.7%
3htyA00 2.40.128.280 Mainly Beta › Beta Barrel › Lipocalin › 0.62 54.0 5.16e-01 96.3% 97.9%
2pcsA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.62 49.0 4.09e-01 87.8% 51.3%
1y8cA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.61 41.0 4.71e-01 92.7% 95.0%
6secA03 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.61 53.0 3.71e-01 100.0% 100.0%
2z6oA00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.60 52.0 4.23e-01 98.8% 65.7%
4jglA00 2.40.128.530 Mainly Beta › Beta Barrel › Lipocalin › 0.60 50.0 4.10e-01 91.5% 64.5%
3qszA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.60 51.0 3.99e-01 93.9% 53.1%
2bklA02 2.130.10.120 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Prolyl oligopeptidase, N-terminal domain 0.59 48.0 3.21e-01 89.0% 26.3%
2mouA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.59 47.0 3.51e-01 87.8% 44.1%
1jssA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.59 46.0 3.55e-01 86.6% 45.7%
4ghbA00 2.40.160.190 Mainly Beta › Beta Barrel › Porin › 0.58 46.0 3.32e-01 87.8% 77.6%
2r55A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.58 45.0 3.44e-01 86.6% 45.2%
1bebA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.58 48.0 3.98e-01 95.1% 56.4%
3tfzB00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.58 48.0 3.95e-01 97.6% 84.2%
4n6tA00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.57 42.0 4.31e-01 80.5% 98.7%
4hgzA02 2.20.25.570 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.57 39.0 4.30e-01 89.0% 96.7%
1ul7A00 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.57 46.0 4.42e-01 95.1% 82.4%
2e3nA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.56 49.0 3.55e-01 97.6% 69.7%
2v8qA01 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.56 46.0 4.54e-01 95.1% 95.5%
6yfiB01 3.30.380.10 Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein 0.56 39.0 3.42e-01 75.6% 67.4%
1dwnA00 3.30.380.10 Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein 0.56 41.0 3.63e-01 80.5% 77.2%
2l8oA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.55 45.0 3.82e-01 92.7% 55.6%
3k1lA01 3.30.457.40 Alpha Beta › 2-Layer Sandwich › Copper Amine Oxidase; Chain A, domain 1 › 0.55 42.0 4.06e-01 82.9% 85.9%
1r4sA00 3.10.270.10 Alpha Beta › Roll › Urate Oxidase › Urate Oxidase; 0.53 43.0 3.02e-01 91.5% 56.1%
2vf9A00 3.30.380.10 Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein 0.53 42.0 3.63e-01 87.8% 78.6%
4p4mA02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.53 48.0 4.25e-01 100.0% 84.3%
4i8oA02 3.30.160.690 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Bacterial toxin RNase RnlA/LsoA, N repeated domain 0.53 42.0 4.14e-01 92.7% 83.3%
2vd5B01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.52 36.0 2.79e-01 73.2% 54.5%
3kn6A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.52 34.0 3.73e-01 75.6% 86.2%
4ozxA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 44.0 3.11e-01 100.0% 50.5%
1b7eA01 3.90.350.10 Alpha Beta › Alpha-Beta Complex › Transposase Inhibitor Protein From Tn5; Chain A, domain 1 › Transposase Inhibitor Protein From Tn5; Chain A, domain 1 0.50 38.0 2.79e-01 84.1% 65.0%
ECOD (56)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4384965 331.4.1.0 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.73 54.0 5.49e-01 78.0% 81.2%
3428734 267.1.1.3 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase 0.65 52.0 3.34e-01 87.8% 22.7%
4974588 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.64 53.0 5.47e-01 95.1% 100.0%
3454410 267.1.1.3 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase 0.64 50.0 4.01e-01 84.1% 44.4%
3619070 331.3.1.5 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc 0.63 53.0 4.22e-01 92.7% 47.3%
3942181 6150.1.1.0 ↗ a+b two layers › hypotheical protein Lreu_0056 › hypotheical protein Lreu_0056 › hypotheical protein Lreu_0056 0.63 51.0 4.78e-01 91.5% 75.2%
4984607 331.4.1.0 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.63 52.0 5.02e-01 95.1% 91.6%
3789706 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.62 53.0 4.15e-01 92.7% 45.9%
3594326 241.10.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › GAS2 domain › GAS2 domain 0.62 50.0 5.07e-01 92.7% 90.0%
3279607 9.3.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Quinohemoprotein amine dehydrogenase A chain, domain 3-like › Quinohemoprotein amine dehydrogenase A chain, domain 3-like 0.62 55.0 5.20e-01 100.0% 97.0%
4983588 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.62 43.0 4.46e-01 75.6% 78.7%
3961758 331.3.1.7 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › COXG 0.62 53.0 4.44e-01 98.8% 83.3%
3663339 331.4.1.7 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › DUF1499 0.61 51.0 4.27e-01 96.3% 67.1%
None — 0.61 50.0 3.54e-01 93.9% 38.2%
3177251 216.1.1.41 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › PF29959 0.60 49.0 4.03e-01 90.2% 57.4%
3257870 331.9.1.0 ↗ a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain 0.60 52.0 4.38e-01 98.8% 58.7%
3886734 331.4.1.7 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › DUF1499 0.60 49.0 3.99e-01 92.7% 63.0%
3660920 331.4.1.2 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › NAF 0.60 51.0 4.42e-01 98.8% 90.4%
3606615 241.10.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › GAS2 domain › GAS2 domain 0.60 50.0 4.88e-01 92.7% 85.6%
4178727 314.1.1.11 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA_synthFbeta 0.59 48.0 3.55e-01 89.0% 44.0%
4263663 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.59 51.0 4.18e-01 100.0% 78.8%
4289286 331.3.1.5 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc 0.59 49.0 4.06e-01 92.7% 53.3%
3243115 331.3.1.3 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › START 0.59 49.0 3.59e-01 92.7% 44.4%
4026812 331.3.1.5 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc 0.58 49.0 3.98e-01 93.9% 49.4%
4927080 331.3.1.11 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc2 0.58 49.0 4.16e-01 93.9% 60.4%
3981106 331.3.1.5 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc 0.58 48.0 3.99e-01 92.7% 52.0%
3677415 331.4.1.2 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › NAF 0.58 49.0 4.42e-01 98.8% 98.3%
4496856 331.3.1.3 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › START 0.58 46.0 3.04e-01 87.8% 41.5%
None — 0.58 48.0 3.03e-01 95.1% 20.5%
3920188 331.3.1.3 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › START 0.58 47.0 3.46e-01 91.5% 40.9%
3701487 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.58 39.0 2.68e-01 70.7% 24.2%
3907221 331.3.1.3 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › START 0.58 45.0 3.44e-01 87.8% 46.2%
3913070 331.4.1.3 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › AdenylateSensor 0.57 47.0 4.65e-01 93.9% 90.9%
3965583 331.3.1.5 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc 0.57 47.0 4.03e-01 92.7% 55.7%
3717196 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.57 49.0 3.67e-01 98.8% 75.1%
3578918 331.3.1.3 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › START 0.57 40.0 3.42e-01 72.0% 48.9%
144571 331.3.1.11 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc2 0.57 48.0 3.95e-01 98.8% 83.9%
3895620 331.3.1.5 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc 0.57 47.0 3.82e-01 92.7% 47.9%
73522 331.4.1.1 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › KA1 0.57 48.0 4.42e-01 96.3% 78.9%
3628385 331.3.1.3 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › START 0.57 49.0 3.56e-01 100.0% 69.8%
3935996 59.1.1.9 ↗ beta complex topology › triple barrel › triple barrel › Rap30/74 interaction domains-like › EAF 0.57 45.0 4.15e-01 85.4% 85.7%
3403106 331.3.1.5 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc 0.57 48.0 3.84e-01 93.9% 47.9%
4666593 241.1.1.2 ↗ a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone › Autophagy_act_C 0.57 48.0 4.00e-01 98.8% 89.3%
3208902 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.57 40.0 3.07e-01 73.2% 41.1%
3870867 331.4.1.0 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.56 47.0 4.23e-01 96.3% 85.0%
5048999 331.9.1.0 ↗ a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain 0.56 47.0 4.02e-01 96.3% 59.3%
5051238 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.56 39.0 3.37e-01 74.4% 65.0%
3271265 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.55 36.0 3.23e-01 95.1% 45.8%
3926131 331.3.1.3 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › START 0.55 45.0 3.31e-01 92.7% 38.7%
4355722 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.55 44.0 4.25e-01 91.5% 90.5%
4965852 330.7.1.2 ↗ a+b two layers › dsRBD-like › PI-Pfui intein middle domain › PI-Pfui intein middle domain › HicA_toxin 0.54 41.0 4.22e-01 85.4% 90.0%
3554870 331.3.1.3 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › START 0.53 43.0 3.35e-01 92.7% 46.8%
3725129 241.1.1.2 ↗ a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone › Autophagy_act_C 0.53 45.0 3.75e-01 97.6% 92.3%
5028140 4312.1.1.0 ↗ a+b two layers › RelE-like › RelE-like › RelE-like 0.53 36.0 3.74e-01 70.7% 100.0%
3267720 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.52 41.0 4.02e-01 89.0% 80.0%
3711120 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 39.0 3.42e-01 89.0% 80.7%