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pre3_saliva_scaffold_18_prodigal-single.1__X__X__00213

Bact-Vir

pre3_saliva_scaffold_18_prodigal-single.1__X__X__00213

Identity

Kingdom:
phage

Quality

65.3 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 34-94_878-1108
PDB
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3foaB01 3.40.50.11780 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.80 58.0 6.69e-01 89.7% 97.7%
3llvA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.64 30.0 4.44e-01 89.7% 97.7%
3geeA03 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.64 30.0 4.32e-01 74.7% 95.5%
1mkyA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 34.0 4.58e-01 73.6% 98.7%
5dn8A02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 34.0 4.45e-01 99.3% 99.4%
1mkyA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 32.0 4.28e-01 70.9% 98.0%
3b0pA01 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.57 36.0 3.97e-01 92.1% 77.2%
3p26A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.56 37.0 4.21e-01 99.7% 86.5%
1kk1A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 36.0 4.30e-01 74.3% 96.4%
1qwgA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.54 35.0 3.77e-01 91.8% 73.3%
2ixtA00 3.40.50.200 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidase S8/S53 domain 0.54 47.0 4.65e-01 91.1% 90.3%
3afgA02 3.40.50.200 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidase S8/S53 domain 0.54 48.0 4.82e-01 96.9% 91.7%
4h08A00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.54 36.0 4.26e-01 71.9% 98.0%
3v33B00 3.40.50.11980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 23.0 3.04e-01 80.1% 70.0%
1fdyB00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.53 36.0 3.63e-01 97.9% 67.0%
3nvaA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 41.0 4.19e-01 99.3% 81.2%
1ypfA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.53 34.0 3.42e-01 77.7% 62.4%
3fzqB01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.52 29.0 3.86e-01 72.9% 98.7%
3o8oA03 3.40.50.450 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.52 35.0 4.08e-01 94.2% 92.9%
4xvhA02 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.52 38.0 4.33e-01 99.3% 98.2%
2qtcA02 3.40.50.970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains 0.52 32.0 3.65e-01 91.4% 79.8%
3uyiA01 3.20.20.100 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › NADP-dependent oxidoreductase domain 0.52 33.0 3.28e-01 91.8% 59.3%
3f6tA03 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.51 33.0 3.76e-01 89.4% 84.5%
1mi3A00 3.20.20.100 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › NADP-dependent oxidoreductase domain 0.51 34.0 3.37e-01 92.1% 60.8%
2qmaA02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.50 18.0 2.57e-01 100.0% 64.8%
2czrA02 3.90.79.30 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › TBP-interacting protein, C-terminal domain 0.50 23.0 3.40e-01 96.2% 100.0%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2468451 2499.2.1.1 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › Phage_sheath_1 0.87 64.0 7.34e-01 94.9% 97.7%
4995822 2499.2.1.1 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › Phage_sheath_1 0.86 70.0 7.56e-01 94.9% 94.9%
4889792 2499.2.1.0 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 0.86 63.0 7.27e-01 95.2% 98.6%
4988098 2499.2.1.0 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 0.84 61.0 6.78e-01 96.2% 91.1%
2391375 2499.2.1.1 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › Phage_sheath_1 0.81 56.0 6.39e-01 95.2% 89.5%
5004680 2499.2.1.1 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › Phage_sheath_1 0.81 68.0 7.08e-01 93.5% 91.6%
5060661 2499.2.1.1 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › Phage_sheath_1 0.81 62.0 6.74e-01 96.9% 91.6%
4873217 2499.2.1.1 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › Phage_sheath_1 0.80 42.0 5.91e-01 72.3% 100.0%
2468538 2499.2.1.0 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 0.80 67.0 7.20e-01 94.5% 98.1%
3978226 2499.2.1.1 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › Phage_sheath_1 0.79 68.0 6.96e-01 95.9% 91.8%
1518917 2499.2.1.2 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › Phage_sheath_1,Gp18_domIII_N 0.79 65.0 6.80e-01 93.8% 90.8%
3944167 2499.2.1.2 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › Phage_sheath_1,Gp18_domIII_N 0.78 65.0 6.79e-01 93.2% 91.5%
3948874 2499.2.1.6 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › DUF3383 0.78 58.0 6.39e-01 96.6% 91.3%
4888782 2499.2.1.2 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › Phage_sheath_1,Gp18_domIII_N 0.78 70.0 7.26e-01 95.5% 97.1%
3947382 2499.2.1.5 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › VipB 0.76 62.0 5.93e-01 83.6% 86.4%
2832219 2499.2.1.0 a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 0.74 69.0 6.33e-01 95.9% 94.5%
5053367 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.62 27.0 3.99e-01 88.0% 89.2%
5071766 2004.1.1.16 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Arf 0.62 34.0 4.50e-01 98.6% 96.2%
4249598 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.60 35.0 4.52e-01 73.6% 97.6%
4516442 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.60 34.0 4.44e-01 73.6% 97.6%
5006837 2002.1.1.25 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › HMGL-like 0.58 37.0 3.80e-01 92.1% 64.2%
4451997 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.58 33.0 4.22e-01 74.0% 94.7%
4100115 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.57 32.0 4.10e-01 73.6% 92.0%
4426017 2004.1.1.19 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.56 35.0 4.03e-01 98.3% 83.9%
4087141 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.56 37.0 4.19e-01 71.2% 86.8%
3418933 2004.1.1.414 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › GTP_EFTU, MMR_HSR1 0.56 35.0 4.13e-01 99.7% 88.3%
4377748 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.56 32.0 4.14e-01 74.3% 96.5%
5046589 2499.1.1.1 a/b three-layered sandwiches › Subtilisin-like › Subtilisin-like › Subtilisin-like › Peptidase_S8 0.55 49.0 4.92e-01 99.3% 91.9%
3281192 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.55 34.0 4.13e-01 98.3% 94.6%
5043299 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.55 19.0 3.26e-01 83.6% 94.4%
4194046 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.55 34.0 4.07e-01 74.3% 91.6%
5023888 2002.1.1.100 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › ComA 0.55 35.0 3.80e-01 91.8% 73.2%
4292847 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.54 34.0 3.02e-01 100.0% 43.5%
4440720 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.54 36.0 4.17e-01 70.9% 92.6%
5058677 2002.1.1.100 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › ComA 0.54 35.0 3.70e-01 91.8% 71.0%
4270477 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.54 35.0 4.09e-01 70.5% 89.0%
3657220 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.54 35.0 3.03e-01 75.0% 41.8%
4681109 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.54 33.0 3.79e-01 99.7% 80.5%
4028431 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.53 36.0 3.64e-01 71.6% 68.1%
3604824 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.52 37.0 3.38e-01 71.9% 52.7%
4947380 2004.1.1.94 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ATP_bind_1 0.51 37.0 4.06e-01 74.3% 98.0%
3314088 2002.1.1.100 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › ComA 0.50 35.0 3.62e-01 91.4% 72.4%
4386037 2004.1.1.414 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › GTP_EFTU, MMR_HSR1 0.50 36.0 4.04e-01 74.3% 93.0%
4498370 2004.1.1.14 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › GTP_EFTU 0.50 36.0 3.99e-01 74.3% 90.6%
D2 high residues 414-496_530-564
PDB
D3 medium residues 208-252_383-409_839-847
PDB
Domain cluster: representative
D4 medium residues 571-631
PDB
D5 medium residues 708-762
PDB
D6 medium residues 1121-1201
PDB
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3hxlA05 3.30.360.90 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › 0.76 52.0 5.56e-01 77.8% 82.6%
3kg0A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.72 43.0 4.06e-01 77.8% 49.5%
2mq8A00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.71 45.0 4.02e-01 76.5% 45.5%
6fgjA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.67 49.0 4.06e-01 77.8% 56.0%
2bbeA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.67 41.0 3.82e-01 77.8% 47.6%
1yj7D02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.65 39.0 3.89e-01 77.8% 56.3%
1lqlA02 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.64 46.0 4.23e-01 75.3% 62.1%
4xq7A01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.61 45.0 3.62e-01 77.8% 40.4%
1pu1A00 3.30.300.100 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › MTH677-like 0.60 45.0 4.36e-01 79.0% 70.3%
3bb5A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 38.0 3.60e-01 77.8% 53.4%
2od6C00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 39.0 3.61e-01 77.8% 53.3%
4k15A00 2.60.40.3860 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 36.0 3.04e-01 80.2% 37.7%
4g6vB00 3.30.70.2920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 40.0 3.79e-01 76.5% 60.2%
1wibA00 3.30.1550.10 Alpha Beta › 2-Layer Sandwich › Ribosomal protein L11, N-terminal domain › Ribosomal protein L11/L12, N-terminal domain 0.53 31.0 2.99e-01 70.4% 46.7%
5ekaA00 4.10.520.10 Few Secondary Structures › Irregular › HU Protein; Chain A › IHF-like DNA-binding proteins 0.53 27.0 2.72e-01 74.1% 43.5%
4bbyB04 3.30.70.3450 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 35.0 3.29e-01 76.5% 56.7%
1i9gA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 35.0 2.73e-01 74.1% 36.4%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4917688 283.2.1.0 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like 0.87 65.0 6.02e-01 77.8% 68.0%
2471639 283.2.1.0 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like 0.86 76.0 6.79e-01 95.1% 73.9%
2468539 283.2.1.2 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › Phage_sheath_1C 0.85 76.0 6.70e-01 96.3% 72.2%
3980756 283.2.1.2 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › Phage_sheath_1C 0.84 70.0 6.42e-01 93.8% 69.5%
2468488 283.2.1.2 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › Phage_sheath_1C 0.83 76.0 6.74e-01 97.5% 73.9%
4957559 283.2.1.2 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › Phage_sheath_1C 0.83 68.0 6.30e-01 87.7% 74.0%
3949098 283.2.1.2 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › Phage_sheath_1C 0.81 70.0 6.25e-01 96.3% 68.2%
3276089 316.1.1.13 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › RelA_SpoT 0.65 48.0 3.81e-01 77.8% 46.1%
3951046 210.1.3.4 a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_6 0.64 45.0 3.14e-01 77.8% 22.6%
4271696 306.7.1.1 a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.55 43.0 3.80e-01 88.9% 81.5%
4584629 2498.1.1.6 mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M3 0.52 39.0 2.31e-01 81.5% 15.2%
5053381 304.1.1.1 a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain › GHMP_kinases_C 0.51 37.0 3.00e-01 75.3% 56.7%
3503266 324.1.1.1 a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.50 36.0 3.03e-01 76.5% 55.6%
4408513 2499.1.1.1 a/b three-layered sandwiches › Subtilisin-like › Subtilisin-like › Subtilisin-like › Peptidase_S8 0.50 35.0 2.30e-01 74.1% 26.4%