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LacPavin_0818_WC40_scaffold_75050_prodigal-single.1__X__X__00020

Bact-Vir

LacPavin_0818_WC40_scaffold_75050_prodigal-single.1__X__X__00020

Identity

Kingdom:
phage

Quality

89.2 mean pLDDT

3D Structure

Domains

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

D1 high residues 7-80
PDB
CATH (53)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2pt7G02 3.30.1370.180 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.71 58.0 6.08e-01 90.5% 100.0%
1ug8A00 3.30.1370.50 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › R3H-like domain 0.71 62.0 5.95e-01 98.6% 86.2%
3hz7A00 3.30.110.40 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › TusA-like domain 0.70 54.0 5.43e-01 82.4% 84.9%
2fphX01 3.30.1370.160 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.69 53.0 5.32e-01 85.1% 87.0%
3evzA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.69 55.0 4.26e-01 87.8% 41.0%
2gukA00 3.30.2190.10 Alpha Beta › 2-Layer Sandwich › PG1857-like › PG1857-like 0.67 51.0 4.48e-01 82.4% 56.8%
2lrrA00 3.30.1370.50 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › R3H-like domain 0.65 49.0 4.99e-01 83.8% 85.7%
4jwoA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.65 44.0 3.61e-01 81.1% 37.6%
2cpmA00 3.30.1370.50 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › R3H-like domain 0.65 55.0 5.15e-01 98.6% 76.6%
3hnrA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.63 47.0 3.56e-01 82.4% 47.7%
3zxoA00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.63 45.0 3.83e-01 77.0% 85.6%
4gt8A00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.62 48.0 3.97e-01 82.4% 96.2%
4fvaC00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.61 51.0 3.55e-01 91.9% 36.7%
5idmA00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.61 45.0 3.42e-01 78.4% 66.1%
3dh0B00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.61 47.0 3.59e-01 86.5% 50.0%
2h00B00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.61 49.0 3.66e-01 93.2% 62.4%
1akoA00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.60 45.0 3.15e-01 82.4% 55.6%
2if1A00 3.30.780.10 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor Eif1 › SUI1-like domain 0.60 41.0 3.46e-01 71.6% 44.4%
1o7dC02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.60 44.0 4.16e-01 82.4% 65.2%
4lecA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 45.0 3.35e-01 82.4% 31.7%
4nb5B01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.59 40.0 3.90e-01 70.3% 98.8%
7n0eB02 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.59 43.0 3.68e-01 78.4% 62.3%
3isrA02 2.60.40.2250 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 44.0 4.04e-01 90.5% 61.0%
2hqyA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.58 46.0 3.86e-01 86.5% 81.5%
1ysrA00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.58 41.0 3.42e-01 75.7% 95.6%
4ushA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 41.0 3.67e-01 73.0% 58.3%
2qy6A01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.58 44.0 3.18e-01 86.5% 26.4%
2h1yA02 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.57 36.0 3.69e-01 71.6% 65.7%
3jz3B01 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.57 46.0 3.72e-01 89.2% 95.9%
4wgkA02 2.60.40.2300 Mainly Beta › Sandwich › Immunoglobulin-like › Neutral/alkaline non-lysosomal ceramidase, C-terminal domain 0.57 41.0 3.39e-01 75.7% 58.6%
2jdcA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.57 45.0 3.70e-01 87.8% 44.8%
4mtlA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 42.0 3.18e-01 82.4% 30.8%
2pcrA02 3.40.190.80 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › 0.57 41.0 3.58e-01 77.0% 53.0%
4bixB02 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.56 42.0 3.36e-01 79.7% 63.5%
3e23A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 41.0 3.15e-01 82.4% 56.6%
4dzrA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.55 43.0 3.41e-01 86.5% 40.5%
4kp4A02 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.55 40.0 3.28e-01 79.7% 67.6%
5h20A00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.54 45.0 4.05e-01 90.5% 72.8%
3lnlB02 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 37.0 3.51e-01 71.6% 68.2%
1i72A00 3.60.90.10 Alpha Beta › 4-Layer Sandwich › S-adenosylmethionine decarboxylase › S-adenosylmethionine decarboxylase 0.54 38.0 2.72e-01 75.7% 78.1%
3g2fA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.53 38.0 3.69e-01 78.4% 77.0%
3bxoA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 44.0 3.46e-01 98.6% 57.6%
1id0A00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.53 39.0 3.18e-01 79.7% 67.1%
4x28C02 2.40.110.10 Mainly Beta › Beta Barrel › Butyryl-CoA Dehydrogenase, subunit A; domain 2 › Butyryl-CoA Dehydrogenase, subunit A, domain 2 0.52 38.0 3.51e-01 79.7% 79.2%
4of8A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 35.0 3.21e-01 71.6% 63.1%
6lgqC01 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.51 41.0 3.39e-01 86.5% 88.5%
1vk3A04 3.30.70.1670 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Formylglycinamide ribonucleotide amidotransferase, C-terminal domain 0.51 36.0 3.30e-01 73.0% 99.0%
3i24B00 3.30.428.10 Alpha Beta › 2-Layer Sandwich › HIT family, subunit A › HIT-like 0.51 38.0 3.18e-01 82.4% 57.6%
3r0aA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.51 39.0 3.42e-01 85.1% 55.0%
3v8hC00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.51 39.0 2.73e-01 87.8% 53.8%
3o4oB03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 36.0 3.23e-01 75.7% 66.1%
7k0xA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 35.0 3.44e-01 71.6% 69.2%
1jvaB02 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.51 35.0 3.12e-01 73.0% 52.7%
ECOD (60)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3598932 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.79 59.0 5.13e-01 77.0% 98.1%
3218484 320.1.1.1 a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.78 66.0 6.78e-01 94.6% 97.1%
3410614 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.73 63.0 5.62e-01 95.9% 67.6%
3780948 320.1.1.1 a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.72 65.0 5.87e-01 100.0% 75.0%
3596107 320.2.1.0 a+b two layers › R3H domain-like › Ribosomal protein S8, N-terminal domain › Ribosomal protein S8, N-terminal domain 0.71 53.0 5.59e-01 78.4% 89.2%
3396645 320.1.1.1 a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.71 64.0 5.75e-01 100.0% 77.0%
3578925 320.1.1.1 a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.70 57.0 5.13e-01 90.5% 67.6%
3743748 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.70 54.0 5.06e-01 82.4% 68.9%
135569 328.5.1.1 a+b two layers › IF3-like › SirA-like › SirA-like › TusA 0.70 54.0 5.41e-01 82.4% 83.8%
3416416 320.1.1.1 a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.70 57.0 5.10e-01 90.5% 66.7%
3820397 320.1.1.1 a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.69 56.0 5.19e-01 94.6% 69.5%
3616045 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.68 55.0 5.65e-01 98.6% 94.3%
3663972 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.68 58.0 4.06e-01 94.6% 60.8%
3592313 328.5.1.0 a+b two layers › IF3-like › SirA-like › SirA-like 0.68 51.0 5.11e-01 81.1% 82.7%
5061311 328.5.1.6 a+b two layers › IF3-like › SirA-like › SirA-like › DUF2249 0.67 50.0 5.19e-01 81.1% 84.3%
4250326 328.5.1.5 a+b two layers › IF3-like › SirA-like › SirA-like › AnfO_nitrog 0.67 48.0 4.73e-01 78.4% 70.0%
5620 320.3.1.1 a+b two layers › R3H domain-like › PG1857-like › PG1857-like › DUF2023 0.67 51.0 4.48e-01 82.4% 56.8%
5010188 328.5.1.0 a+b two layers › IF3-like › SirA-like › SirA-like 0.67 48.0 4.95e-01 77.0% 80.0%
3260870 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.67 52.0 4.96e-01 89.2% 71.1%
4185283 328.6.1.1 a+b two layers › IF3-like › EPT/RTPC-like › EPT/RTPC-like › EPSP_synthase 0.66 49.0 3.50e-01 82.4% 26.2%
4132371 2003.1.5.152 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › CMAS, Methyltransf_25 0.66 50.0 3.64e-01 82.4% 43.8%
4068381 328.6.1.1 a+b two layers › IF3-like › EPT/RTPC-like › EPT/RTPC-like › EPSP_synthase 0.65 53.0 3.78e-01 89.2% 91.8%
5056661 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.64 42.0 3.40e-01 73.0% 33.3%
3287448 2003.1.5.46 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MTS 0.64 52.0 3.63e-01 91.9% 33.1%
5051958 2003.1.5.79 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_23 0.64 48.0 3.72e-01 82.4% 58.3%
4989141 2003.1.5.66 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.63 48.0 3.22e-01 82.4% 28.5%
5011923 2003.1.3.1 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › DAO 0.63 44.0 2.84e-01 71.6% 20.3%
4962130 310.3.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related 0.63 47.0 4.39e-01 79.7% 90.0%
3605723 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.62 54.0 5.27e-01 95.9% 96.2%
3307802 306.3.1.1 a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like › SUI1 0.62 42.0 4.03e-01 71.6% 63.6%
4979624 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.61 47.0 4.19e-01 83.8% 63.6%
4997152 7523.1.1.23 a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › PBP_like_2 0.61 42.0 3.44e-01 75.7% 39.3%
3190333 2003.1.5.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.61 47.0 3.09e-01 86.5% 22.6%
3386250 2003.1.5.46 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MTS 0.61 48.0 3.57e-01 87.8% 40.5%
4985204 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.60 48.0 3.72e-01 87.8% 38.8%
3386504 2003.1.5.49 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_30 0.60 45.0 3.23e-01 86.5% 25.4%
3975884 7523.1.1.0 a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II 0.59 40.0 3.29e-01 77.0% 35.3%
3950275 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.59 43.0 4.15e-01 78.4% 78.8%
3958608 2003.1.5.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.59 49.0 3.60e-01 95.9% 47.4%
4999898 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.58 44.0 4.22e-01 83.8% 77.8%
5069904 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.58 43.0 3.49e-01 78.4% 64.3%
4455158 7523.1.1.23 a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › PBP_like_2 0.58 39.0 3.10e-01 77.0% 31.5%
None 0.58 46.0 3.43e-01 89.2% 40.5%
4479215 11.1.1.97 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.57 41.0 3.51e-01 75.7% 58.3%
4949041 225.1.1.0 a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 0.57 43.0 3.72e-01 82.4% 77.7%
3332006 101.1.2.245 alpha arrays › HTH › HTH › winged helix domain › PORR 0.57 49.0 4.15e-01 94.6% 65.0%
5076507 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.57 44.0 3.60e-01 86.5% 46.6%
5072579 7523.1.1.0 a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II 0.57 39.0 3.38e-01 77.0% 44.2%
3989654 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.57 44.0 3.57e-01 86.5% 43.0%
4927318 2003.1.5.8 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Ubie_methyltran 0.56 44.0 3.19e-01 86.5% 44.5%
3970665 225.1.1.0 a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 0.56 42.0 3.40e-01 79.7% 95.2%
4489568 140.1.1.21 alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › tRNA-synt_1e, CysS_C 0.55 40.0 2.92e-01 77.0% 29.5%
3531322 101.1.2.564 alpha arrays › HTH › HTH › winged helix domain › PF27514 0.55 42.0 4.40e-01 83.8% 93.8%
3838126 2003.1.5.46 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MTS 0.54 41.0 3.12e-01 82.4% 47.7%
4076065 2003.1.5.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.54 44.0 2.92e-01 93.2% 46.3%
4316395 2003.1.5.46 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MTS 0.54 45.0 3.17e-01 97.3% 41.9%
5070420 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.53 42.0 3.43e-01 86.5% 49.3%
3893117 101.1.2.564 alpha arrays › HTH › HTH › winged helix domain › PF27514 0.53 41.0 4.36e-01 87.8% 96.9%
5429 304.111.1.3 a+b two layers › Alpha-beta plaits › PurM C-terminal domain-like › PurM C-terminal domain-like › PurL_C 0.51 36.0 3.30e-01 73.0% 99.0%
3258276 4081.1.1.2 beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT 0.51 41.0 3.01e-01 93.2% 39.6%