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amazon_plume_scaffold_4_prodigal-single.1__X__X__00098

Bact-Vir

amazon_plume_scaffold_4_prodigal-single.1__X__X__00098

Identity

Kingdom:
phage

Quality

80.8 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 6-72
PDB
Domain cluster: representative
CATH (56)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5ycqA00 2.30.30.390 Mainly Beta › Roll › SH3 type barrels. › Hemimethylated DNA-binding domain 0.89 62.0 5.85e-01 100.0% 62.3%
2f5kA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.80 57.0 6.47e-01 100.0% 100.0%
6bogA02 2.30.30.930 Mainly Beta › Roll › SH3 type barrels. › 0.78 53.0 5.62e-01 100.0% 80.0%
1tg0A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.77 64.0 6.47e-01 100.0% 89.4%
2fhdA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.77 57.0 5.93e-01 100.0% 83.9%
6gbuD00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.76 62.0 6.31e-01 100.0% 92.2%
1y96A00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.70 51.0 4.74e-01 100.0% 60.5%
4epcA02 2.30.30.170 Mainly Beta › Roll › SH3 type barrels. › 0.69 61.0 6.03e-01 100.0% 93.0%
2l3rA02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.68 55.0 5.39e-01 100.0% 80.8%
2shpB03 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.66 46.0 3.05e-01 73.1% 48.6%
4ge6A00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.65 47.0 3.03e-01 76.1% 47.9%
3k7uC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.63 45.0 4.01e-01 76.1% 90.8%
7xpkA01 2.30.30.490 Mainly Beta › Roll › SH3 type barrels. › Bromo adjacent homology (BAH) domain 0.62 56.0 4.33e-01 100.0% 51.7%
2jjdF02 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.62 44.0 2.99e-01 76.1% 51.1%
3qcmA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.61 45.0 2.97e-01 77.6% 47.2%
6o5cA02 2.30.30.90 Mainly Beta › Roll › SH3 type barrels. › Ferrous iron transport protein A (FeoA) 0.61 53.0 5.08e-01 100.0% 84.2%
4ikcA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.61 44.0 2.94e-01 76.1% 46.4%
5zr6A02 2.30.30.90 Mainly Beta › Roll › SH3 type barrels. › Ferrous iron transport protein A (FeoA) 0.61 53.0 5.14e-01 100.0% 88.2%
3ebtA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 50.0 4.09e-01 95.5% 82.4%
3k44B00 3.30.2450.30 Alpha Beta › 2-Layer Sandwich › Secreted effector protein pipB2 fold › 0.60 44.0 3.50e-01 79.1% 81.4%
2g30A02 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.60 44.0 3.70e-01 79.1% 80.2%
1rl2A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 42.0 4.57e-01 89.6% 91.1%
7fisA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.58 52.0 3.33e-01 97.0% 26.8%
3doaA01 2.30.310.10 Mainly Beta › Roll › ibrinogen binding protein from staphylococcus aureus fold › ibrinogen binding protein from staphylococcus aureus domain 0.58 51.0 3.85e-01 95.5% 66.7%
2k5iA01 2.30.30.90 Mainly Beta › Roll › SH3 type barrels. › Ferrous iron transport protein A (FeoA) 0.58 50.0 4.63e-01 100.0% 76.2%
1jkfA03 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.58 39.0 4.12e-01 88.1% 78.3%
3en8A01 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 49.0 4.16e-01 95.5% 84.8%
3blzA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 48.0 4.02e-01 95.5% 83.1%
3fh1A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 48.0 4.03e-01 95.5% 79.5%
3ecfA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 48.0 3.97e-01 95.5% 73.4%
5evhA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.57 47.0 3.94e-01 92.5% 71.9%
4kc5C03 3.10.129.110 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Polyketide synthase dehydratase 0.57 44.0 2.95e-01 86.6% 79.9%
3k7cA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 44.0 3.93e-01 92.5% 93.5%
3d2lA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.56 36.0 3.72e-01 94.0% 69.8%
6ro0F00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.56 40.0 3.56e-01 76.1% 61.2%
1y0gA00 2.40.128.110 Mainly Beta › Beta Barrel › Lipocalin › Lipid/polyisoprenoid-binding, YceI-like 0.56 49.0 3.62e-01 97.0% 95.3%
2hx0A01 3.30.1330.80 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Hypothetical protein, similar to alpha- acetolactate decarboxylase; domain 2 0.55 46.0 3.82e-01 100.0% 50.0%
3n8bA00 3.10.450.700 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 38.0 3.67e-01 95.5% 64.0%
5je6A01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.54 47.0 3.22e-01 95.5% 92.7%
1vkdA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.54 48.0 3.08e-01 100.0% 85.6%
3lygA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 45.0 3.81e-01 95.5% 82.5%
5aigA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 43.0 3.68e-01 95.5% 79.8%
2y1sA00 2.30.60.10 Mainly Beta › Roll › HIV-inactivating Protein, Cyanovirin-n › Cyanovirin-N 0.54 45.0 3.91e-01 95.5% 75.9%
3u0aA00 2.40.160.210 Mainly Beta › Beta Barrel › Porin › Acyl-CoA thioesterase, double hotdog domain 0.54 41.0 2.89e-01 86.6% 88.7%
6s5xA01 2.60.40.3600 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 40.0 3.87e-01 94.0% 72.0%
1n7vA01 2.105.10.10 Mainly Beta › 3 Propeller › Pseudo beta propeller › Pseudo beta propeller 0.53 42.0 3.18e-01 89.6% 67.2%
2bvbA00 2.60.120.710 Mainly Beta › Sandwich › Jelly Rolls › Toxoplasma gondii micronemal protein 1 TgMIC1 0.53 44.0 3.65e-01 100.0% 73.7%
2xklA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.53 46.0 3.62e-01 100.0% 59.1%
6htnA01 2.120.10.70 Mainly Beta › 6 Propeller › Neuraminidase › Fucose-specific lectin 0.53 45.0 3.59e-01 95.5% 97.8%
7bspA01 2.70.150.10 Mainly Beta › Distorted Sandwich › Calcium-transporting ATPase, cytoplasmic transduction domain A › Calcium-transporting ATPase, cytoplasmic transduction domain A 0.52 44.0 3.54e-01 100.0% 78.3%
3al9A01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 46.0 2.74e-01 97.0% 21.4%
7k98B01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 45.0 3.84e-01 100.0% 88.6%
4esqA00 3.40.1000.70 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › PknH-like extracellular domain 0.51 42.0 3.11e-01 94.0% 63.4%
3bc9A01 2.60.40.1220 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 39.0 3.59e-01 83.6% 92.5%
2jzlA00 2.30.60.10 Mainly Beta › Roll › HIV-inactivating Protein, Cyanovirin-n › Cyanovirin-N 0.51 45.0 3.82e-01 98.5% 82.0%
2e12A00 2.30.30.720 Mainly Beta › Roll › SH3 type barrels. › Protein of unknown function (DUF3247) 0.51 42.0 3.86e-01 100.0% 69.9%
ECOD (61)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3214131 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.84 57.0 5.33e-01 100.0% 58.7%
5034724 4.1.1.482 beta barrels › SH3 › SH3 › SH3 › DUF4314 0.84 62.0 6.77e-01 95.5% 94.5%
5043697 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.82 58.0 5.92e-01 100.0% 75.4%
3730229 4.1.1.102 beta barrels › SH3 › SH3 › SH3 › Tudor_3 0.80 58.0 5.59e-01 100.0% 68.0%
3942573 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.80 58.0 6.21e-01 100.0% 87.9%
3742938 4.1.1.102 beta barrels › SH3 › SH3 › SH3 › Tudor_3 0.77 57.0 5.82e-01 100.0% 80.0%
3932484 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.75 59.0 6.10e-01 100.0% 87.5%
5042986 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.72 53.0 5.62e-01 100.0% 86.7%
3207081 4.1.1.92 beta barrels › SH3 › SH3 › SH3 › SH3_9 0.72 60.0 6.15e-01 98.5% 93.8%
3480200 4.1.1.54 beta barrels › SH3 › SH3 › SH3 › SH3_2 0.71 64.0 6.20e-01 100.0% 97.3%
3972820 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.70 62.0 5.87e-01 100.0% 81.2%
3359808 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.69 50.0 4.03e-01 77.6% 41.5%
3238384 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.69 49.0 3.48e-01 74.6% 69.7%
3371185 2.1.1.130 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF223 0.68 50.0 3.27e-01 79.1% 33.3%
3234660 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.68 48.0 3.23e-01 74.6% 55.2%
3355345 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.68 46.0 4.55e-01 70.1% 92.9%
4492826 2.4.1.2 beta barrels › OB-fold › MOP-like › MOP-like › TOBE_2 0.67 52.0 4.32e-01 83.6% 88.7%
3784770 4.8.1.0 beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.66 61.0 5.83e-01 100.0% 88.0%
4003008 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.66 47.0 3.08e-01 74.6% 33.4%
3700484 219.1.1.0 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.66 58.0 3.92e-01 100.0% 38.8%
4207556 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.65 58.0 5.73e-01 100.0% 95.7%
3664617 2.1.1.223 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PF28721 0.65 48.0 4.48e-01 79.1% 65.9%
3661180 2.1.1.223 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PF28721 0.65 47.0 4.11e-01 76.1% 55.0%
3237464 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.65 47.0 3.05e-01 77.6% 42.9%
3996443 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.64 46.0 3.09e-01 74.6% 39.1%
4405469 4.1.1.248 beta barrels › SH3 › SH3 › SH3 › CABIT 0.64 51.0 4.60e-01 100.0% 63.2%
None 0.64 45.0 2.93e-01 73.1% 45.6%
None 0.64 46.0 2.97e-01 76.1% 43.3%
3699353 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.62 45.0 2.88e-01 76.1% 40.6%
3507549 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 41.0 3.20e-01 70.1% 76.8%
5065203 316.1.1.18 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › AbiEii 0.61 49.0 3.29e-01 88.1% 40.2%
3786518 4.8.1.18 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Myosin_N 0.61 47.0 4.85e-01 98.5% 87.7%
3411042 4.8.1.0 beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.61 50.0 5.24e-01 97.0% 98.3%
4973612 5.1.2.7 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › Glyco_hydro_130 0.59 53.0 3.30e-01 98.5% 85.8%
3206625 12.1.1.0 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.59 35.0 3.98e-01 91.0% 86.7%
4177861 243.1.1.66 a+b two layers › Cystatin-like › NTF2-like › NTF2-like › TcaA_5th 0.59 49.0 4.17e-01 97.0% 81.7%
5031673 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.58 51.0 4.41e-01 100.0% 65.7%
3981113 283.2.1.1 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › GPW_gp25 0.57 44.0 3.74e-01 82.1% 95.4%
5069442 5.1.2.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.57 49.0 3.17e-01 94.0% 27.2%
4024809 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.57 48.0 4.36e-01 92.5% 94.4%
5018251 5.1.2.7 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › Glyco_hydro_130 0.56 51.0 3.25e-01 100.0% 89.5%
3701911 5.1.2.33 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › BNR_3 0.56 49.0 3.40e-01 97.0% 34.5%
136977 243.1.1.20 a+b two layers › Cystatin-like › NTF2-like › NTF2-like › DUF4878 0.56 44.0 3.93e-01 92.5% 93.5%
3471723 9.1.1.0 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.56 50.0 4.06e-01 97.0% 66.7%
3246514 219.1.1.4 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.56 50.0 3.43e-01 100.0% 43.5%
3967111 3338.2.1.2 a+b two layers › Fragilysin-3 prodomain-like › Type II secretion chaperone CpaB › Type II secretion chaperone CpaB › BamI_lipocalin 0.55 42.0 3.45e-01 97.0% 44.0%
3218924 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.55 44.0 2.81e-01 86.6% 46.2%
169352 2.2.1.0 beta barrels › OB-fold › Bacterial enterotoxins › Bacterial enterotoxins 0.55 43.0 3.67e-01 88.1% 57.6%
4023011 2003.1.3.5 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › NAD_binding_8 0.55 49.0 3.39e-01 98.5% 45.7%
4571073 243.1.1.66 a+b two layers › Cystatin-like › NTF2-like › NTF2-like › TcaA_5th 0.54 46.0 4.01e-01 97.0% 93.3%
5044978 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 0.54 39.0 3.82e-01 86.6% 70.7%
3603190 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 46.0 2.66e-01 97.0% 10.5%
5068090 4272.1.1.1 a+b two layers › Nqo5-like › Nqo5-like › Nqo5-like › Complex1_30kDa 0.53 41.0 3.65e-01 86.6% 68.0%
4087213 330.4.1.1 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.53 42.0 4.13e-01 98.5% 80.0%
3630385 9.1.1.49 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › DUF7043 0.53 46.0 3.85e-01 97.0% 70.4%
3497118 9.14.1.0 beta barrels › Lipocalins/Streptavidin › Uncharacterized protein YLR301W › Uncharacterized protein YLR301W 0.53 45.0 3.65e-01 98.5% 97.1%
3897308 9.1.1.1 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › Lipocalin 0.52 44.0 3.42e-01 100.0% 67.7%
3212496 243.1.1.0 a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.51 42.0 3.87e-01 92.5% 91.1%
3784741 247.1.1.9 a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › DRMBL 0.51 37.0 2.47e-01 80.6% 58.1%
3494351 9.1.1.50 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › DUF7042 0.50 44.0 3.51e-01 98.5% 95.6%
3399366 9.14.1.3 beta barrels › Lipocalins/Streptavidin › Uncharacterized protein YLR301W › Uncharacterized protein YLR301W › DUF7042 0.50 43.0 3.48e-01 100.0% 100.0%