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LacPavin_0818_WC40_scaffold_238879_prodigal-single.1__X__X__00042

Bact-Vir

LacPavin_0818_WC40_scaffold_238879_prodigal-single.1__X__X__00042

Identity

Kingdom:
phage

Quality

70.0 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

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 4-80
PDB
Domain cluster: representative
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3hz7A00 3.30.110.40 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › TusA-like domain 0.71 53.0 5.41e-01 77.9% 94.5%
7m0oA02 3.65.10.10 Alpha Beta › Alpha-beta prism › UDP-n-acetylglucosamine1-carboxyvinyl-transferase; Chain › Enolpyruvate transferase domain 0.71 57.0 4.26e-01 85.7% 53.8%
2lrrA00 3.30.1370.50 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › R3H-like domain 0.68 51.0 5.31e-01 100.0% 87.1%
3evzA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.67 56.0 4.32e-01 96.1% 41.6%
2cpmA00 3.30.1370.50 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › R3H-like domain 0.67 52.0 4.91e-01 97.4% 68.1%
2fphX01 3.30.1370.160 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.67 54.0 5.49e-01 100.0% 88.3%
3p04A00 3.30.110.150 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › SepF-like protein 0.67 49.0 4.91e-01 77.9% 83.1%
4krgA02 3.40.50.12180 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.65 51.0 3.80e-01 85.7% 79.5%
3ajdA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.65 48.0 3.65e-01 80.5% 73.2%
4dcmA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.65 49.0 3.80e-01 81.8% 88.5%
3douA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.65 49.0 3.83e-01 83.1% 37.7%
2o0bA02 3.65.10.10 Alpha Beta › Alpha-beta prism › UDP-n-acetylglucosamine1-carboxyvinyl-transferase; Chain › Enolpyruvate transferase domain 0.64 55.0 4.05e-01 97.4% 94.9%
2mraA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.62 47.0 4.18e-01 83.1% 89.7%
2o0bA01 3.65.10.10 Alpha Beta › Alpha-beta prism › UDP-n-acetylglucosamine1-carboxyvinyl-transferase; Chain › Enolpyruvate transferase domain 0.61 55.0 4.02e-01 100.0% 73.2%
3ipjA01 3.30.1360.60 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Glucose permease domain IIB 0.61 41.0 4.07e-01 94.8% 66.3%
1u02A02 3.30.70.1020 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Trehalose-6-phosphate phosphatase related protein; domain 2 0.61 45.0 4.60e-01 96.1% 81.6%
2yvwA02 3.65.10.10 Alpha Beta › Alpha-beta prism › UDP-n-acetylglucosamine1-carboxyvinyl-transferase; Chain › Enolpyruvate transferase domain 0.59 53.0 3.89e-01 100.0% 94.2%
4fqdB02 3.65.10.10 Alpha Beta › Alpha-beta prism › UDP-n-acetylglucosamine1-carboxyvinyl-transferase; Chain › Enolpyruvate transferase domain 0.59 52.0 3.84e-01 100.0% 93.5%
1dd5A02 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.59 45.0 4.58e-01 100.0% 84.0%
5mmjh01 3.30.1370.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.59 44.0 4.45e-01 80.5% 82.7%
4fqdA01 3.65.10.10 Alpha Beta › Alpha-beta prism › UDP-n-acetylglucosamine1-carboxyvinyl-transferase; Chain › Enolpyruvate transferase domain 0.58 52.0 3.78e-01 100.0% 67.6%
1ejdA01 3.65.10.10 Alpha Beta › Alpha-beta prism › UDP-n-acetylglucosamine1-carboxyvinyl-transferase; Chain › Enolpyruvate transferase domain 0.58 52.0 3.79e-01 100.0% 69.1%
6vudA02 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.58 44.0 4.45e-01 100.0% 84.0%
3pqvC01 3.65.10.20 Alpha Beta › Alpha-beta prism › UDP-n-acetylglucosamine1-carboxyvinyl-transferase; Chain › RNA 3'-terminal phosphate cyclase domain 0.57 49.0 3.50e-01 100.0% 95.7%
2g1pB01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 42.0 3.50e-01 80.5% 64.4%
2amyA02 3.30.1240.20 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein, Haloacid Dehalogenase-like Hydrolase; Chain: A; domain 2 › Eukaryotic phosphomannomutase, cap domain 0.57 49.0 4.48e-01 96.1% 77.5%
6toaF01 3.30.2000.30 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.56 49.0 4.20e-01 100.0% 86.9%
4dmgA03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 47.0 3.44e-01 93.5% 46.0%
2ohwA00 3.30.1330.30 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Ribosomal protein L30/S12 0.55 40.0 3.47e-01 77.9% 54.7%
1wr8A02 3.90.1070.10 Alpha Beta › Alpha-Beta Complex › Hypothetical Protein Ta0175; Chain: A, domain 2 › 0.55 39.0 4.09e-01 98.7% 84.1%
1i94H01 3.30.1370.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.55 40.0 4.04e-01 81.8% 78.2%
2cw8A03 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.55 49.0 3.79e-01 100.0% 94.1%
3sqnB01 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 40.0 4.31e-01 98.7% 100.0%
3f8kA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.54 46.0 3.96e-01 100.0% 99.2%
4b6zA01 2.60.40.3120 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 46.0 4.07e-01 98.7% 78.8%
7xhzA01 3.30.1240.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein, Haloacid Dehalogenase-like Hydrolase; Chain: A; domain 2 › 0.52 43.0 3.77e-01 94.8% 90.2%
3daoA02 3.30.1240.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein, Haloacid Dehalogenase-like Hydrolase; Chain: A; domain 2 › 0.51 44.0 3.96e-01 96.1% 87.2%
3vaxA02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.51 44.0 4.14e-01 94.8% 81.1%
1jvaB02 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.51 40.0 3.59e-01 100.0% 60.0%
3lcyA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 38.0 3.59e-01 87.0% 64.9%
ECOD (76)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5015326 328.5.1.0 a+b two layers › IF3-like › SirA-like › SirA-like 0.71 52.0 5.62e-01 77.9% 92.3%
4149866 328.6.1.1 a+b two layers › IF3-like › EPT/RTPC-like › EPT/RTPC-like › EPSP_synthase 0.70 49.0 3.60e-01 80.5% 27.3%
3740981 328.7.1.1 a+b two layers › IF3-like › Smr domain › Smr domain › Smr 0.70 51.0 4.93e-01 76.6% 92.9%
3785289 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.70 51.0 5.51e-01 97.4% 92.3%
5056274 2003.1.5.42 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_21 0.69 53.0 4.08e-01 81.8% 52.3%
3386910 328.5.1.1 a+b two layers › IF3-like › SirA-like › SirA-like › TusA 0.69 51.0 5.35e-01 77.9% 95.7%
3879109 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.69 54.0 4.86e-01 98.7% 61.5%
3176665 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.69 52.0 5.16e-01 100.0% 77.5%
4361828 320.1.1.1 a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.69 54.0 4.83e-01 98.7% 61.0%
3581967 320.1.1.1 a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.69 53.0 5.69e-01 97.4% 96.9%
3595128 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.68 50.0 5.40e-01 92.2% 93.8%
4011288 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.68 50.0 5.53e-01 98.7% 100.0%
5038360 2006.1.1.11 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase_3 0.68 50.0 3.41e-01 96.1% 24.1%
5015712 2003.1.5.54 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_10 0.67 55.0 3.81e-01 90.9% 36.0%
4675682 2003.1.5.89 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Anamorsin_N 0.67 52.0 4.34e-01 84.4% 85.9%
3266992 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.66 52.0 5.63e-01 96.1% 100.0%
3706548 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.66 54.0 5.31e-01 100.0% 83.5%
3395627 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.66 52.0 5.33e-01 98.7% 88.0%
5056562 2003.1.5.82 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_31 0.65 51.0 3.95e-01 84.4% 100.0%
3552466 320.1.1.1 a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.65 54.0 5.64e-01 100.0% 98.6%
4445788 2003.1.5.89 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Anamorsin_N 0.65 49.0 4.13e-01 80.5% 89.2%
4339024 3012.1.1.0 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.65 45.0 4.55e-01 97.4% 73.3%
3473363 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.65 50.0 5.43e-01 96.1% 98.5%
3964051 328.6.1.1 a+b two layers › IF3-like › EPT/RTPC-like › EPT/RTPC-like › EPSP_synthase 0.65 60.0 4.25e-01 100.0% 70.9%
4929591 306.3.1.1 a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like › SUI1 0.64 46.0 4.43e-01 84.4% 65.2%
3243210 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.64 47.0 5.09e-01 89.6% 100.0%
2594999 328.9.1.1 a+b two layers › IF3-like › SepF C-terminal domain › SepF C-terminal domain › SepF 0.64 48.0 4.66e-01 80.5% 71.3%
3637371 320.1.1.1 a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.64 53.0 4.78e-01 100.0% 66.7%
4364889 328.6.1.1 a+b two layers › IF3-like › EPT/RTPC-like › EPT/RTPC-like › EPSP_synthase 0.64 59.0 4.25e-01 100.0% 73.0%
3596774 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 0.64 47.0 4.02e-01 77.9% 75.8%
4621057 328.6.1.1 a+b two layers › IF3-like › EPT/RTPC-like › EPT/RTPC-like › EPSP_synthase 0.63 58.0 4.23e-01 100.0% 67.5%
3490295 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.63 50.0 5.19e-01 98.7% 95.7%
3958915 3012.1.1.0 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.63 47.0 4.70e-01 98.7% 77.5%
4096786 328.6.1.1 a+b two layers › IF3-like › EPT/RTPC-like › EPT/RTPC-like › EPSP_synthase 0.63 57.0 4.08e-01 100.0% 66.8%
3609147 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.63 52.0 4.70e-01 100.0% 66.7%
3951206 3012.1.1.1 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › Trehalose_PPase 0.62 46.0 4.64e-01 98.7% 77.5%
5043392 3012.1.1.0 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.62 41.0 4.38e-01 94.8% 80.0%
4269299 328.6.1.1 a+b two layers › IF3-like › EPT/RTPC-like › EPT/RTPC-like › EPSP_synthase 0.62 56.0 4.08e-01 100.0% 70.7%
3648733 310.2.1.1 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › RRF 0.62 47.0 3.39e-01 100.0% 29.5%
5012700 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.61 46.0 4.48e-01 100.0% 71.8%
4362035 310.2.1.1 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › RRF 0.61 46.0 3.47e-01 100.0% 33.5%
4650786 2003.1.5.89 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Anamorsin_N 0.61 43.0 3.77e-01 77.9% 47.2%
3279129 2006.1.1.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.61 43.0 2.97e-01 90.9% 21.1%
5036919 328.6.1.1 a+b two layers › IF3-like › EPT/RTPC-like › EPT/RTPC-like › EPSP_synthase 0.61 55.0 3.94e-01 100.0% 68.4%
4993381 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.60 44.0 4.18e-01 97.4% 65.6%
4127496 304.22.1.1 a+b two layers › Alpha-beta plaits › Urease metallochaperone UreE, C-terminal domain › Urease metallochaperone UreE, C-terminal domain › UreE_C 0.60 38.0 3.92e-01 98.7% 66.7%
4997088 2003.1.5.66 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.60 48.0 3.54e-01 90.9% 98.7%
3193585 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.59 42.0 3.78e-01 100.0% 54.3%
5001235 2006.1.1.11 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase_3 0.58 41.0 2.89e-01 74.0% 24.6%
4826122 304.48.1.1 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.58 40.0 3.44e-01 90.9% 43.4%
3603735 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.58 48.0 3.79e-01 97.4% 45.3%
4174001 304.22.1.1 a+b two layers › Alpha-beta plaits › Urease metallochaperone UreE, C-terminal domain › Urease metallochaperone UreE, C-terminal domain › UreE_C 0.58 37.0 3.96e-01 98.7% 76.9%
4658845 2006.1.1.11 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase_3 0.58 40.0 2.91e-01 72.7% 65.5%
4942705 2006.1.1.11 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase_3 0.57 40.0 2.84e-01 100.0% 23.5%
4938256 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.57 45.0 4.61e-01 100.0% 86.7%
4949294 2003.1.5.66 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.57 47.0 3.46e-01 92.2% 43.3%
4995067 5104.1.1.0 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases 0.56 48.0 4.19e-01 94.8% 71.3%
4950410 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.55 42.0 4.20e-01 100.0% 78.8%
4030557 101.1.2.281 alpha arrays › HTH › HTH › winged helix domain › Tfb2 0.55 46.0 3.86e-01 100.0% 52.1%
5048559 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.55 44.0 4.06e-01 90.9% 74.3%
None 0.54 39.0 2.78e-01 77.9% 70.0%
4936444 2006.1.1.11 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase_3 0.54 39.0 2.89e-01 77.9% 94.1%
3626537 3012.1.1.5 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › T6PP_C 0.54 44.0 4.19e-01 98.7% 76.8%
4927597 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.53 46.0 3.98e-01 98.7% 96.0%
4951829 3012.1.1.1 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › Trehalose_PPase 0.53 41.0 4.14e-01 94.8% 89.3%
4998600 2003.1.5.80 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_24 0.53 44.0 3.21e-01 94.8% 53.9%
4554419 3012.1.1.0 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.53 45.0 4.04e-01 97.4% 95.5%
3450997 3012.1.1.1 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › Trehalose_PPase 0.52 40.0 3.79e-01 94.8% 67.0%
3594508 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.52 44.0 3.14e-01 98.7% 82.5%
3460668 3012.1.1.1 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › Trehalose_PPase 0.52 39.0 4.00e-01 93.5% 88.0%
4288172 242.1.1.6 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_WhiA 0.51 45.0 3.78e-01 100.0% 56.9%
4998403 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.51 46.0 4.00e-01 100.0% 66.4%
4458167 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.51 42.0 3.40e-01 94.8% 50.3%
3592712 3012.1.1.0 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.51 41.0 3.29e-01 93.5% 91.2%
3600697 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 0.50 41.0 3.65e-01 94.8% 86.7%
5024088 3012.1.1.0 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.50 35.0 3.66e-01 93.5% 81.4%