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NC_009814.1__YP_001468816.1__LiPP35_gp32__00032

Bact-Vir

NC_009814.1__YP_001468816.1__LiPP35_gp32__00032

Identity

Accession:
NC_009814 ↗
Kingdom:
phage

Quality

91.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Listeria_phage_P35

TaxID: 330398

Cluster

View cluster (3 members)

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 7-98
PDB
Domain cluster: rep: OQ623132.1__WGH50139.1__X__00025__D6-87
CATH (31)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2it1A03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.79 42.0 5.15e-01 94.6% 80.3%
1z47A03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.79 42.0 5.55e-01 89.1% 98.0%
1v43A03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.79 42.0 5.02e-01 94.6% 76.6%
1oxxK02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.79 39.0 5.44e-01 90.2% 100.0%
1g29102 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.76 38.0 5.26e-01 90.2% 100.0%
1fr3A00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.75 47.0 5.42e-01 96.7% 86.6%
1hczA02 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.74 43.0 5.29e-01 98.9% 91.5%
1t9hA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.73 48.0 5.36e-01 100.0% 84.9%
4gnxB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.69 46.0 4.15e-01 100.0% 51.6%
1jb7A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.68 48.0 4.43e-01 100.0% 57.8%
1wydA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.65 48.0 4.67e-01 100.0% 69.6%
5i4dA02 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.65 46.0 5.00e-01 100.0% 90.8%
2eqsA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.64 46.0 4.69e-01 100.0% 78.7%
3tdgA01 3.10.450.520 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.64 34.0 3.97e-01 98.9% 72.7%
3rn5A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.63 43.0 4.35e-01 100.0% 70.7%
2id0A02 2.40.50.640 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.62 41.0 4.52e-01 98.9% 86.3%
3u4zA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.61 47.0 4.49e-01 100.0% 70.6%
3doaA01 2.30.310.10 Mainly Beta › Roll › ibrinogen binding protein from staphylococcus aureus fold › ibrinogen binding protein from staphylococcus aureus domain 0.60 49.0 4.09e-01 100.0% 51.6%
4up7A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.60 46.0 3.90e-01 100.0% 49.3%
1nrvA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.58 40.0 3.88e-01 90.2% 64.0%
5zg8A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 49.0 4.78e-01 100.0% 85.3%
6nrzA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 47.0 3.92e-01 100.0% 52.9%
4l5tB02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 45.0 4.58e-01 100.0% 86.8%
3nemA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 49.0 4.68e-01 100.0% 83.8%
1eovA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 48.0 4.27e-01 100.0% 73.9%
2r0cA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 37.0 2.67e-01 83.7% 26.3%
4yhbA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.53 46.0 4.14e-01 96.7% 93.0%
3p0cA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.52 46.0 4.39e-01 98.9% 95.5%
4m69A00 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.52 41.0 2.96e-01 88.0% 61.7%
4ntqB00 3.30.2450.20 Alpha Beta › 2-Layer Sandwich › Secreted effector protein pipB2 fold › 0.52 37.0 3.25e-01 93.5% 48.3%
2xlpB01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.50 37.0 2.48e-01 82.6% 20.6%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3387114 2.4.1.0 ↗ beta barrels › OB-fold › MOP-like › MOP-like 0.80 50.0 4.94e-01 97.8% 61.1%
5071787 2.4.1.2 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE_2 0.77 48.0 4.22e-01 96.7% 44.6%
5012551 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.75 48.0 5.17e-01 100.0% 75.0%
4930329 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.75 42.0 5.40e-01 93.5% 100.0%
1075289 2.4.1.5 ↗ beta barrels › OB-fold › MOP-like › MOP-like › GlcV_C_terminal 0.74 43.0 5.07e-01 96.7% 84.4%
4031833 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.73 35.0 4.30e-01 97.8% 71.7%
421 2.4.1.1 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.72 46.0 5.02e-01 96.7% 77.9%
4002351 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.71 41.0 4.72e-01 97.8% 80.0%
3839111 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.70 52.0 5.29e-01 100.0% 78.9%
3992385 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.70 45.0 4.79e-01 100.0% 75.0%
4126006 325.1.7.14 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › RPOC_hybrid 0.70 39.0 4.52e-01 91.3% 76.9%
5044393 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.68 37.0 4.49e-01 83.7% 81.7%
4263140 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.67 43.0 4.79e-01 91.3% 85.7%
5003654 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.64 44.0 4.80e-01 96.7% 86.7%
4120870 2.1.1.127 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti_2 0.64 45.0 4.31e-01 100.0% 61.8%
5021763 2.4.1.0 ↗ beta barrels › OB-fold › MOP-like › MOP-like 0.64 43.0 4.67e-01 96.7% 84.0%
4521197 211.1.1.0 ↗ a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.63 40.0 4.86e-01 88.0% 100.0%
4934074 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.63 47.0 4.51e-01 100.0% 67.3%
4313430 2.1.1.15 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.61 50.0 4.34e-01 100.0% 58.3%
3952159 375.1.9.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Zinc-nucleated domain of serine integrase 0.61 42.0 4.53e-01 100.0% 86.7%
3972959 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.60 45.0 4.27e-01 100.0% 66.4%
3185246 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.58 53.0 4.73e-01 100.0% 73.1%
5034088 3504.3.1.1 ↗ beta barrels › MutM N-terminal domain-like › Fibrinogen binding protein N-terminal domain › Fibrinogen binding protein N-terminal domain › NFACT_N 0.58 51.0 4.21e-01 100.0% 56.7%
3364012 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.57 35.0 2.31e-01 82.6% 15.6%
5061447 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.57 51.0 4.58e-01 100.0% 81.5%
5048995 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.56 51.0 3.35e-01 98.9% 40.5%
4002146 394.1.1.1 ↗ few secondary structure elements › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › CBM_14 0.56 28.0 3.38e-01 76.1% 74.5%
5062588 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.55 43.0 4.31e-01 100.0% 81.1%
3234647 69.1.2.1 ↗ beta complex topology › Hedgehog/intein › Hedgehog/intein › AXH › AXH 0.55 43.0 3.97e-01 91.3% 65.8%
3735065 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.53 41.0 2.81e-01 88.0% 55.3%
3170371 1.1.7.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.53 46.0 4.26e-01 97.8% 100.0%
3851482 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.52 41.0 2.91e-01 88.0% 60.6%
3601951 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.51 40.0 2.80e-01 85.9% 67.8%
3699171 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.51 40.0 2.77e-01 88.0% 48.4%
3898768 206.1.1.72 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase, Pkinase_fungal 0.51 40.0 2.85e-01 89.1% 63.0%
3388916 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.51 40.0 2.86e-01 88.0% 62.3%
3623700 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.51 39.0 2.77e-01 87.0% 58.8%
3596661 2.6.1.0 ↗ beta barrels › OB-fold › Staphylococcal nuclease › Staphylococcal nuclease 0.51 44.0 3.64e-01 100.0% 63.4%
3725022 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.50 39.0 2.86e-01 88.0% 64.0%
3205488 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.50 39.0 2.99e-01 85.9% 82.1%
D2 high residues 110-229
PDB
Domain cluster: rep: MZ424863.1__QXO10369.1__X__00052__D27-139
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1gutA00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.76 39.0 5.02e-01 81.7% 88.1%
1cukA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.64 36.0 4.54e-01 88.3% 100.0%
3pqiA01 2.40.50.230 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Gp5 N-terminal domain 0.61 41.0 4.77e-01 87.5% 100.0%
1y8cA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.60 25.0 3.40e-01 78.3% 73.3%
1jt8A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.60 36.0 3.83e-01 92.5% 68.6%
6lbtA01 2.40.50.810 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.58 49.0 4.68e-01 100.0% 78.2%
3rn5A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.58 39.0 4.37e-01 100.0% 90.2%
4gnxB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 38.0 3.87e-01 94.2% 67.2%
3ulbA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 33.0 3.75e-01 100.0% 79.5%
1xweA01 2.40.50.120 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 42.0 4.02e-01 95.0% 69.2%
3nppA00 2.40.50.480 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Protein of unknown function DUF1093 0.53 33.0 3.72e-01 98.3% 85.1%
4htgA03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.50 27.0 3.20e-01 70.0% 77.2%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3591052 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.76 42.0 5.55e-01 83.3% 100.0%
4085772 2.4.1.1 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.73 38.0 4.67e-01 82.5% 80.0%
5078248 2.4.1.1 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.73 38.0 4.88e-01 83.3% 87.1%
3935357 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.65 37.0 3.76e-01 97.5% 55.0%
4029815 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 34.0 3.33e-01 92.5% 47.7%
3988584 2.4.1.2 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE_2 0.60 39.0 4.24e-01 85.0% 79.0%
3788285 395.1.1.4 ↗ few secondary structure elements › Midkine-related › Midkine-related › Midkine-related › Flocculin_t3 0.59 27.0 3.90e-01 94.2% 100.0%
3919450 2.1.1.261 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › NRG2_N 0.56 41.0 4.17e-01 91.7% 77.5%
3200646 220.1.1.201 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF7493 0.55 36.0 3.78e-01 97.5% 73.3%
3706267 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.55 44.0 3.88e-01 95.0% 58.9%
3172146 2.1.1.93 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Cdc13_OB4_dimer 0.54 49.0 4.56e-01 100.0% 87.3%
3858464 2.1.1.213 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › OB_POT1A 0.54 48.0 4.43e-01 99.2% 85.8%
3914285 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.53 48.0 4.48e-01 100.0% 88.2%
5052151 2.1.1.80 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › MCM_OB 0.53 41.0 4.16e-01 99.2% 85.2%
3591493 264.1.1.0 ↗ beta barrels › LigT-like › LigT-related › LigT-related 0.53 40.0 3.78e-01 80.0% 96.6%
4603703 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.52 46.0 4.25e-01 99.2% 85.6%
4600473 2.4.1.2 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE_2 0.51 40.0 3.92e-01 85.0% 74.8%