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NC_041878.1__YP_009594561.1__FDG95_gp021__00021

Bact-Vir

NC_041878.1__YP_009594561.1__FDG95_gp021__00021

Identity

Accession:
NC_041878 ↗
Kingdom:
phage

Quality

87.8 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 2-75
PDB
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2zw2A00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.75 54.0 5.22e-01 77.0% 98.8%
1vwxS02 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.73 59.0 5.90e-01 100.0% 85.5%
1gtdA00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.73 52.0 5.10e-01 75.7% 100.0%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.72 60.0 5.94e-01 100.0% 85.5%
1vwxS01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.69 53.0 5.41e-01 81.1% 88.7%
1t4aA00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.69 49.0 4.88e-01 75.7% 100.0%
3egrA00 3.10.20.520 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phenylacetic acid degradation B 0.69 49.0 5.25e-01 87.8% 88.9%
4njcA00 3.10.20.730 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNAP, epsilon subunit-like 0.67 49.0 5.31e-01 100.0% 96.7%
1f94A00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.65 37.0 4.04e-01 87.8% 65.1%
3p96A02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.65 47.0 4.49e-01 75.7% 95.2%
2cyyA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.64 51.0 4.73e-01 86.5% 85.3%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.64 42.0 4.48e-01 77.0% 77.3%
2cg8B02 3.30.70.560 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 7,8-Dihydro-6-hydroxymethylpterin-pyrophosphokinase HPPK 0.64 54.0 4.47e-01 93.2% 86.4%
1u8sA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.63 50.0 4.78e-01 85.1% 96.5%
1vk8A00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 50.0 4.65e-01 89.2% 94.6%
1n26A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 43.0 3.79e-01 75.7% 49.5%
1lxnA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 49.0 4.51e-01 87.8% 92.9%
3rgzA02 3.30.1490.310 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.61 42.0 4.50e-01 87.8% 88.5%
3mgjA00 3.30.70.2690 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › LOR/SDH bifunctional enzyme, conserved domain 0.61 46.0 4.26e-01 81.1% 96.9%
2iboA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 48.0 4.55e-01 87.8% 96.6%
5jpnB04 2.60.120.1540 Mainly Beta › Sandwich › Jelly Rolls › 0.60 39.0 3.33e-01 77.0% 41.3%
3hvnA01 3.90.840.10 Alpha Beta › Alpha-Beta Complex › HIV-1 Reverse Transcriptase; Chain A, domain 3 › Thiol-activated cytolysin superfamily/Thiol-activated cytolysin, alpha-beta domain 0.60 43.0 3.39e-01 78.4% 38.4%
2ipiA02 3.40.462.20 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › 0.58 49.0 3.52e-01 100.0% 61.3%
3ce8A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 44.0 4.16e-01 83.8% 96.6%
1wktA00 2.60.20.20 Mainly Beta › Sandwich › Gamma-B Crystallin; domain 1 › 0.57 34.0 3.27e-01 74.3% 48.9%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.57 39.0 3.70e-01 73.0% 57.6%
1zpwX00 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 47.0 4.55e-01 89.2% 97.6%
2xzlA02 2.40.30.230 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.57 39.0 3.87e-01 74.3% 67.1%
3e7wA02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.57 44.0 3.91e-01 83.8% 83.8%
2llzA01 3.30.70.2360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 47.0 4.44e-01 90.5% 97.8%
4d8mA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.56 42.0 3.30e-01 81.1% 51.8%
3jamD02 3.30.1140.32 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Ribosomal protein S3, C-terminal domain 0.55 37.0 3.07e-01 70.3% 61.7%
4cthA02 1.10.1380.10 Mainly Alpha › Orthogonal Bundle › Neutral endopeptidase; domain 2 › Neutral endopeptidase , domain2 0.55 45.0 2.92e-01 93.2% 55.3%
8bs9A01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.55 40.0 2.73e-01 79.7% 25.3%
5cvmA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.54 40.0 2.70e-01 79.7% 26.3%
4isbB02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.53 43.0 3.92e-01 93.2% 68.2%
2ipiA01 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.53 36.0 2.63e-01 73.0% 51.5%
1amuA04 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.52 39.0 3.64e-01 82.4% 90.6%
2mraA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.52 37.0 3.29e-01 77.0% 49.6%
1k9fA01 3.30.379.10 Alpha Beta › 2-Layer Sandwich › Chitobiase; domain 2 › Chitobiase/beta-hexosaminidase domain 2-like 0.52 39.0 3.33e-01 82.4% 83.2%
3zn4A00 2.60.120.1180 Mainly Beta › Sandwich › Jelly Rolls › 0.51 38.0 3.17e-01 83.8% 75.2%
ECOD (66)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4951473 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.80 57.0 6.17e-01 79.7% 88.9%
4160542 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.78 56.0 6.15e-01 78.4% 94.8%
4937773 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.77 55.0 6.03e-01 77.0% 94.8%
4967222 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.77 56.0 6.14e-01 81.1% 95.0%
3517068 3115.1.1.6 a+b two layers › GP2-like › RplX-like › RplX-like › DUF4494 0.76 58.0 6.18e-01 81.1% 92.3%
4939739 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.76 55.0 6.01e-01 79.7% 94.9%
5074648 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.76 61.0 6.15e-01 100.0% 85.3%
5012895 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.76 52.0 5.86e-01 78.4% 96.4%
5013194 3115.4.1.0 a+b two layers › GP2-like › Uncharacterized conserved protein Il1583 › Uncharacterized conserved protein Il1583 0.75 53.0 5.93e-01 74.3% 100.0%
4969863 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.74 61.0 6.08e-01 100.0% 86.7%
4962335 3115.5.1.1 a+b two layers › GP2-like › phenylacetate-CoA oxygenase subunit PaaB › phenylacetate-CoA oxygenase subunit PaaB › PaaB 0.73 53.0 5.58e-01 87.8% 86.2%
5067865 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.73 60.0 6.16e-01 100.0% 92.9%
5000510 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.73 58.0 5.87e-01 100.0% 85.3%
2106285 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.71 58.0 5.12e-01 100.0% 61.1%
4648475 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.70 52.0 5.66e-01 78.4% 100.0%
4929776 3115.5.1.0 a+b two layers › GP2-like › phenylacetate-CoA oxygenase subunit PaaB › phenylacetate-CoA oxygenase subunit PaaB 0.69 58.0 5.94e-01 98.6% 95.7%
3593508 3333.1.1.0 a+b two layers › Barrel domain in dedicator of cytokinesis protein 9 › Barrel domain in dedicator of cytokinesis protein 9 › Barrel domain in dedicator of cytokinesis protein 9 0.69 59.0 4.73e-01 94.6% 93.8%
3892842 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.69 51.0 5.44e-01 79.7% 90.8%
3210904 12.6.1.0 beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related 0.69 61.0 4.96e-01 97.3% 99.3%
3905094 302.1.1.1 a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.68 49.0 4.08e-01 78.4% 50.4%
4008166 3115.1.1.10 a+b two layers › GP2-like › RplX-like › RplX-like › PF27430 0.67 58.0 5.36e-01 100.0% 74.7%
3956448 304.100.1.1 a+b two layers › Alpha-beta plaits › PurS-like › PurS-like › PurS 0.67 48.0 4.76e-01 77.0% 98.7%
4962129 304.4.1.1 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.67 53.0 4.90e-01 86.5% 87.4%
4240799 299.1.1.0 a+b complex topology › YbaK/ProRS associated domain › YbaK/ProRS associated domain › YbaK/ProRS associated domain 0.66 59.0 4.65e-01 100.0% 56.8%
3314684 10.10.1.5 beta sandwiches › jelly-roll › Lipase/lipooxygenase domain (PLAT/LH2 domain) › Lipase/lipooxygenase domain (PLAT/LH2 domain) › DUF7755 0.66 49.0 3.82e-01 78.4% 68.4%
4202856 299.1.1.1 a+b complex topology › YbaK/ProRS associated domain › YbaK/ProRS associated domain › YbaK/ProRS associated domain › tRNA_edit 0.65 57.0 4.46e-01 100.0% 53.3%
4991065 304.4.1.1 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.65 52.0 5.02e-01 86.5% 94.1%
5035636 304.26.1.1 a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.65 52.0 4.74e-01 87.8% 92.0%
5007807 304.26.1.1 a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.64 51.0 4.75e-01 87.8% 94.7%
5028911 304.4.1.1 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.64 52.0 4.87e-01 87.8% 92.2%
3281849 303.1.1.3 a+b four layers › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases › DUF4189 0.64 55.0 4.88e-01 100.0% 93.8%
3738589 302.4.1.0 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.64 45.0 4.02e-01 81.1% 52.4%
5073020 304.26.1.0 a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like 0.64 49.0 4.51e-01 85.1% 93.9%
3338688 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.62 44.0 4.67e-01 75.7% 93.8%
4929485 304.4.1.1 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.62 52.0 4.97e-01 91.9% 98.8%
3788749 6109.1.1.0 a+b two layers › N-terminal domain of chitin biosynthesis protein CHS6 › N-terminal domain of chitin biosynthesis protein CHS6 › N-terminal domain of chitin biosynthesis protein CHS6 0.62 53.0 4.28e-01 98.6% 80.7%
3493644 10.32.1.203 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Seipin 0.62 45.0 3.50e-01 78.4% 69.7%
4029586 10.32.1.203 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Seipin 0.61 44.0 3.55e-01 77.0% 73.3%
4664972 299.1.1.0 a+b complex topology › YbaK/ProRS associated domain › YbaK/ProRS associated domain › YbaK/ProRS associated domain 0.61 53.0 4.29e-01 100.0% 50.0%
3252771 821.1.1.0 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.61 51.0 4.93e-01 95.9% 100.0%
5028999 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.60 50.0 4.52e-01 90.5% 86.0%
3744530 302.4.1.1 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › Hydant_A_C 0.60 42.0 3.75e-01 81.1% 50.0%
1318645 304.4.1.20 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg2 0.59 47.0 4.24e-01 86.5% 81.6%
3210164 304.44.1.1 a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 0.59 43.0 3.40e-01 77.0% 54.8%
5050551 876.1.1.0 a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.58 41.0 3.35e-01 75.7% 96.7%
4613363 304.6.1.3 a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › BBE 0.58 49.0 3.48e-01 100.0% 54.8%
4175430 1119.1.1.1 a+b complex topology › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › BioW 0.57 49.0 3.50e-01 100.0% 59.3%
3622256 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.57 41.0 3.21e-01 77.0% 35.5%
3405278 382.1.1.3 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › Activin_recp 0.57 44.0 4.06e-01 93.2% 64.0%
3265857 299.1.1.0 a+b complex topology › YbaK/ProRS associated domain › YbaK/ProRS associated domain › YbaK/ProRS associated domain 0.57 48.0 4.31e-01 100.0% 80.9%
3599777 327.5.1.0 a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins 0.57 42.0 3.64e-01 83.8% 79.2%
3857592 382.1.1.1 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › UPAR_LY6 0.56 44.0 4.22e-01 91.9% 72.2%
3540023 382.1.1.1 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › UPAR_LY6 0.56 44.0 4.18e-01 91.9% 72.2%
4015453 212.1.1.12 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › UPF0029 0.55 41.0 3.48e-01 81.1% 90.0%
3295051 327.5.1.2 a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins › AMP-binding_C 0.55 41.0 3.63e-01 82.4% 80.9%
4137321 304.56.1.2 a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.55 44.0 4.20e-01 87.8% 98.8%
4930471 304.4.1.79 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › MCR_D 0.55 42.0 3.90e-01 86.5% 90.0%
4427418 11.1.1.1229 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF27268 0.54 39.0 3.65e-01 77.0% 81.1%
3577596 304.112.1.0 a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain 0.54 47.0 3.83e-01 98.6% 95.2%
3774716 11.2.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.53 46.0 3.39e-01 100.0% 97.2%
4654177 1119.1.1.1 a+b complex topology › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › BioW 0.53 44.0 3.22e-01 100.0% 98.0%
4487906 304.56.1.2 a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.52 43.0 4.10e-01 91.9% 86.7%
3831785 304.24.1.0 a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.52 37.0 3.46e-01 78.4% 76.0%
3197935 73.1.1.1 beta sandwiches › SMAD/FHA domain › SMAD/FHA domain › SMAD/FHA domain › FHA 0.51 40.0 3.28e-01 86.5% 92.4%
3483062 221.1.1.116 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Ubiquitin_6 0.50 41.0 3.57e-01 93.2% 92.5%
3721482 304.6.1.1 a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › FAD-oxidase_C 0.50 41.0 2.85e-01 93.2% 71.2%