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NC_053010.1__YP_009999936.1__JT352_gp71__00071

Bact-Vir

NC_053010.1__YP_009999936.1__JT352_gp71__00071

Identity

Accession:
NC_053010 ↗
Kingdom:
phage

Quality

76.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Casjensviridae› Redjacvirus› Providencia_phage_vB_PreS-Stilesk

TaxID: 2761110

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 6-108
PDB
Domain cluster: representative
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4htgA03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.69 50.0 5.60e-01 78.6% 97.5%
2k4vA00 3.30.160.370 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Domain of unknown function DUF5064 0.67 49.0 4.60e-01 83.5% 63.2%
2giaA00 2.30.31.40 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › 0.66 44.0 3.85e-01 75.7% 45.5%
6izcA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.63 47.0 3.51e-01 77.7% 83.3%
1qwdB00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.63 45.0 3.79e-01 73.8% 64.5%
3ebwA01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.63 44.0 3.91e-01 71.8% 64.8%
2o62A02 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.61 42.0 3.80e-01 70.9% 58.4%
5hw3A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.60 46.0 3.46e-01 83.5% 82.5%
4r1kB00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 41.0 3.78e-01 71.8% 58.1%
4bs9A05 3.30.160.660 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.60 49.0 4.77e-01 95.1% 81.6%
2rs7A01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.59 40.0 4.58e-01 83.5% 95.9%
4xmeA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.59 45.0 3.72e-01 80.6% 69.6%
3h4zB03 3.15.10.50 Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 1 › 0.59 41.0 3.39e-01 71.8% 82.7%
2fs2B00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.59 41.0 3.72e-01 71.8% 94.9%
4innA00 2.40.128.520 Mainly Beta › Beta Barrel › Lipocalin › 0.59 44.0 3.91e-01 78.6% 60.3%
1l3aA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.58 45.0 3.82e-01 80.6% 75.9%
5hp6A01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.57 51.0 3.60e-01 100.0% 42.7%
1c8uA02 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.56 38.0 3.70e-01 70.9% 85.2%
4ge1C00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.55 48.0 3.91e-01 95.1% 91.7%
2mj7A00 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.55 38.0 3.48e-01 73.8% 52.5%
3otlA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.55 43.0 3.76e-01 82.5% 74.5%
1jofA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.54 44.0 3.02e-01 88.3% 81.9%
5zc1D00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 39.0 4.05e-01 78.6% 95.9%
3lf7A01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.53 45.0 3.09e-01 99.0% 91.0%
4mlgG00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.52 41.0 2.92e-01 84.5% 32.7%
4hfsA00 2.60.120.1270 Mainly Beta › Sandwich › Jelly Rolls › 0.52 41.0 3.38e-01 88.3% 60.6%
4n4bA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.52 46.0 3.28e-01 100.0% 37.9%
4gakA00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.51 43.0 3.21e-01 91.3% 67.2%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3702663 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.74 54.0 4.75e-01 76.7% 53.8%
3286246 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.69 51.0 5.10e-01 75.7% 87.5%
222972 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 0.67 50.0 5.35e-01 76.7% 89.9%
4552605 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 0.67 49.0 5.51e-01 81.6% 100.0%
4135153 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 0.67 47.0 5.37e-01 84.5% 100.0%
3873966 5.1.4.277 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, Beta-prop_EIPR1 0.65 48.0 3.26e-01 76.7% 28.6%
4195924 5.1.4.277 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, Beta-prop_EIPR1 0.65 48.0 3.17e-01 76.7% 32.1%
4216680 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 0.64 46.0 4.83e-01 77.7% 81.7%
4948119 5084.1.1.0 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like 0.63 44.0 4.20e-01 71.8% 95.0%
3714965 11.10.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like 0.63 50.0 4.66e-01 85.4% 96.9%
1877624 5.1.4.15 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › RPE65 0.63 43.0 2.76e-01 70.9% 36.9%
3817243 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.61 43.0 3.88e-01 70.9% 56.3%
4827586 2003.1.5.151 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_23, Methyltransf_25 0.61 44.0 3.34e-01 73.8% 94.8%
852 9.1.1.29 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › BFA1_C 0.61 42.0 3.80e-01 70.9% 58.4%
4499680 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 0.60 42.0 3.50e-01 70.9% 86.1%
3248970 101.1.12.0 ↗ alpha arrays › HTH › HTH › HTH motif inserted in other structures 0.60 44.0 4.33e-01 77.7% 100.0%
5052931 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.60 49.0 3.27e-01 88.3% 30.4%
3404834 292.2.1.0 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain 0.59 40.0 4.41e-01 76.7% 88.7%
4998774 2004.1.1.198 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.59 46.0 2.98e-01 83.5% 28.8%
4573262 2004.1.1.429 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_15 0.58 45.0 3.24e-01 83.5% 40.7%
5023515 2004.1.1.87 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.58 45.0 3.10e-01 83.5% 34.0%
5057645 9.2.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Avidin/Streptavidin › Avidin/Streptavidin 0.57 40.0 3.93e-01 86.4% 65.2%
5077760 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.57 46.0 2.94e-01 85.4% 29.0%
154696 9.1.1.2 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › Nitrophorin 0.57 49.0 3.92e-01 92.2% 89.2%
3704401 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.56 43.0 4.18e-01 85.4% 73.9%
1140712 331.9.1.2 ↗ a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain › B2-adapt-app_C 0.55 38.0 3.58e-01 73.8% 56.9%
4941519 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.55 45.0 3.05e-01 90.3% 88.6%
5071103 5.1.4.43 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › FG-GAP_3 0.54 44.0 3.00e-01 87.4% 60.0%
143323 7579.1.1.27 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › AXE1 0.54 39.0 2.85e-01 76.7% 88.3%
3884054 243.3.1.1 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › Cystatin 0.54 40.0 4.04e-01 78.6% 93.0%
3254115 5.1.4.56 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › NUP214 0.54 44.0 2.95e-01 91.3% 46.1%
3780296 243.3.1.1 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › Cystatin 0.53 40.0 4.13e-01 79.6% 94.7%
3921621 2003.1.5.359 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth, Methyltransf_25 0.53 45.0 2.73e-01 91.3% 29.0%
3891004 243.3.1.1 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › Cystatin 0.53 40.0 4.16e-01 81.6% 95.8%
3573161 2003.1.5.13 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth 0.53 40.0 2.71e-01 79.6% 58.4%
3947188 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.52 40.0 4.07e-01 84.5% 96.2%
4959715 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.52 42.0 2.86e-01 87.4% 52.5%
4605201 3222.1.1.1 ↗ a+b complex topology › Regulatory domain of isocitrate dehydrogenase kinase/phosphatase › Regulatory domain of isocitrate dehydrogenase kinase/phosphatase › Regulatory domain of isocitrate dehydrogenase kinase/phosphatase › AceK_regulatory 0.52 43.0 3.05e-01 89.3% 81.3%
4026594 331.9.1.2 ↗ a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain › B2-adapt-app_C 0.51 37.0 3.54e-01 74.8% 97.5%
4970858 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.50 36.0 3.55e-01 82.5% 70.0%