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NC_053010.1__YP_009999904.1__JT352_gp39__00039

Bact-Vir

NC_053010.1__YP_009999904.1__JT352_gp39__00039

Identity

Accession:
NC_053010 ↗
Kingdom:
phage

Quality

82.6 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 9-90
PDB
Domain cluster: representative
CATH (24)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3bk5A00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.74 51.0 3.62e-01 100.0% 25.1%
3buuB00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.72 50.0 3.57e-01 100.0% 26.8%
1ocsA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.65 49.0 4.22e-01 80.5% 94.7%
2i4kA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.64 48.0 4.19e-01 81.7% 96.1%
3hpcX00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.62 47.0 3.89e-01 82.9% 90.3%
1jb7A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.62 43.0 3.87e-01 100.0% 51.7%
4nswA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.61 39.0 3.59e-01 100.0% 49.5%
2v14A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.61 48.0 4.10e-01 86.6% 95.5%
7x4oB01 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.60 46.0 4.24e-01 84.1% 99.1%
4ikbA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.60 46.0 4.00e-01 82.9% 86.8%
3f2bA02 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.56 49.0 3.51e-01 100.0% 84.5%
2wweA01 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.55 42.0 3.93e-01 82.9% 97.1%
2ar5A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.55 41.0 3.78e-01 82.9% 94.0%
1ryp200 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.55 47.0 3.41e-01 95.1% 51.1%
2rf5A00 3.90.228.10 Alpha Beta › Alpha-Beta Complex › Phosphoenolpyruvate Carboxykinase; domain 3 › 0.53 44.0 3.32e-01 91.5% 86.5%
1gd5A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.53 46.0 4.03e-01 100.0% 91.5%
3iq2A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.53 46.0 4.04e-01 97.6% 91.9%
1iuhA00 3.90.1140.10 Alpha Beta › Alpha-Beta Complex › Cyclic Phosphodiesterase; Chain: A, › Cyclic phosphodiesterase 0.53 36.0 2.88e-01 72.0% 97.3%
4fbdA01 3.30.2310.50 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › Protein of unknown function (DUF3228), domain 1 0.53 42.0 3.80e-01 91.5% 62.3%
5ywwA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 40.0 3.09e-01 100.0% 36.4%
2ikkA00 3.40.1410.10 Alpha Beta › 3-Layer(aba) Sandwich › Chorismate lyase › Chorismate lyase-like 0.51 45.0 3.79e-01 100.0% 74.7%
2hpiA01 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.51 43.0 3.13e-01 100.0% 84.0%
1ukxA00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.51 41.0 3.53e-01 89.0% 79.6%
2pd0A01 3.30.2310.50 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › Protein of unknown function (DUF3228), domain 1 0.51 43.0 3.79e-01 93.9% 63.3%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4402145 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.67 50.0 3.95e-01 80.5% 75.4%
6289 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.65 49.0 4.22e-01 80.5% 94.7%
3979569 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.65 38.0 3.45e-01 92.7% 44.5%
3711707 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.63 48.0 4.04e-01 82.9% 86.9%
3730190 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.62 52.0 4.50e-01 92.7% 92.3%
3614177 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.62 47.0 3.93e-01 82.9% 83.3%
3620578 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.60 47.0 3.82e-01 86.6% 88.5%
4941167 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.58 36.0 3.15e-01 100.0% 41.7%
3494701 213.1.1.25 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_3 0.57 49.0 3.63e-01 100.0% 50.2%
3583426 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.57 47.0 4.03e-01 92.7% 86.4%
3981129 7089.1.1.5 ↗ a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › PF30110 0.56 47.0 4.64e-01 100.0% 85.9%
3686335 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.55 39.0 2.54e-01 74.4% 77.0%
3461753 9.2.1.4 ↗ beta barrels › Lipocalins/Streptavidin › Avidin/Streptavidin › Avidin/Streptavidin › DUF2921_N 0.54 47.0 3.58e-01 93.9% 44.0%
166794 71.1.1.8 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolA_like 0.54 41.0 3.05e-01 100.0% 30.8%
3539169 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.54 47.0 3.68e-01 100.0% 74.6%
3254451 237.1.1.1 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PARP 0.53 46.0 3.43e-01 96.3% 97.7%
3513396 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.53 46.0 3.65e-01 100.0% 72.8%
3412753 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 48.0 3.08e-01 100.0% 23.4%
277 264.1.1.1 ↗ beta barrels › LigT-like › LigT-related › LigT-related › LigT_PEase 0.53 36.0 2.88e-01 72.0% 97.3%
3507566 237.1.1.1 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PARP 0.53 44.0 3.20e-01 92.7% 98.8%
3918173 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.52 46.0 3.10e-01 97.6% 69.8%
3606556 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.52 47.0 2.74e-01 98.8% 12.1%
3922705 237.1.1.1 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PARP 0.52 45.0 3.40e-01 96.3% 97.6%
3330367 9.2.1.4 ↗ beta barrels › Lipocalins/Streptavidin › Avidin/Streptavidin › Avidin/Streptavidin › DUF2921_N 0.51 41.0 3.11e-01 93.9% 37.8%
3916087 237.1.1.1 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PARP 0.51 43.0 3.30e-01 95.1% 95.5%
3255834 237.1.1.1 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PARP 0.51 44.0 3.39e-01 98.8% 96.0%
3172477 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.51 44.0 3.77e-01 100.0% 96.4%
3789199 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.50 40.0 3.65e-01 90.2% 82.6%
D2 high residues 110-216
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3k3wA02 1.10.287.150 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.66 20.0 3.60e-01 95.3% 93.3%