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S2_009_000_R2_scaffold_4_prodigal-single.1__X__X__00222

Bact-Vir

S2_009_000_R2_scaffold_4_prodigal-single.1__X__X__00222

Identity

Kingdom:
phage

Quality

62.4 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 medium residues 41-98
PDB
Domain cluster: representative
CATH (46)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2m6uA00 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.79 69.0 6.18e-01 100.0% 92.7%
1k32A03 3.30.750.44 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › 0.79 67.0 6.34e-01 98.3% 83.3%
2zy9A03 1.10.357.20 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › SLC41 divalent cation transporters, integral membrane domain 0.78 56.0 4.00e-01 77.6% 30.5%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.77 54.0 4.75e-01 74.1% 54.1%
7s0rB01 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.76 67.0 6.18e-01 100.0% 85.5%
1gakA00 1.20.150.10 Mainly Alpha › Up-down Bundle › Lysin › Fertilization protein 0.75 66.0 5.03e-01 100.0% 69.3%
4ghnA01 3.30.750.44 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › 0.75 65.0 5.32e-01 100.0% 54.1%
7b9cA02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.72 54.0 3.26e-01 81.0% 13.3%
3bbzA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.71 51.0 5.47e-01 93.1% 93.8%
4ysxC00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.70 51.0 3.83e-01 79.3% 34.0%
6umqA01 1.20.930.60 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › 0.70 59.0 4.84e-01 100.0% 99.1%
2pihA00 1.20.1500.10 Mainly Alpha › Up-down Bundle › YheA-like fold › YheA/YmcA-like 0.69 47.0 3.63e-01 70.7% 35.8%
8igrI01 2.40.270.10 Mainly Beta › Beta Barrel › Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; Domain 6 › DNA-directed RNA polymerase, subunit 2, domain 6 0.69 51.0 3.65e-01 81.0% 72.2%
1s7bA00 1.10.3730.20 Mainly Alpha › Orthogonal Bundle › ProC C-terminal domain-like fold › 0.69 60.0 4.95e-01 100.0% 67.0%
2k0nA00 1.10.246.20 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › Coactivator CBP, KIX domain 0.68 58.0 5.16e-01 98.3% 80.0%
2e9fB01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.67 58.0 5.01e-01 100.0% 78.1%
4kjmA02 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.67 55.0 5.65e-01 100.0% 98.2%
4heoA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.67 53.0 5.46e-01 98.3% 94.5%
1wp7A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.67 47.0 4.62e-01 74.1% 70.3%
2y1eA03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.67 57.0 5.02e-01 96.6% 77.0%
2e9xA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 46.0 3.56e-01 72.4% 33.6%
4m70I00 1.20.5.4130 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.66 53.0 4.41e-01 91.4% 85.2%
2okuA00 1.20.120.470 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Acyl-CoA dehydrogenase, C-terminal domain 0.65 55.0 4.45e-01 100.0% 68.9%
1dkxA02 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.65 56.0 5.12e-01 100.0% 83.7%
3eo8A00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.64 53.0 3.64e-01 94.8% 52.1%
6ldkA01 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.64 56.0 4.06e-01 100.0% 55.2%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.64 45.0 4.30e-01 74.1% 91.0%
2rp4A00 6.10.280.60 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain 0.63 45.0 4.25e-01 75.9% 67.6%
3tu3B03 1.20.1050.100 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.63 53.0 3.86e-01 100.0% 33.5%
6h5hA00 1.10.150.110 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DNA polymerase beta, N-terminal domain-like 0.62 51.0 4.82e-01 94.8% 83.1%
2c41C01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.62 54.0 4.06e-01 100.0% 47.7%
6h7bA01 1.10.1900.10 Mainly Alpha › Orthogonal Bundle › c-terminal domain of poly(a) binding protein › c-terminal domain of poly(a) binding protein 0.61 48.0 4.55e-01 100.0% 71.6%
3zssA02 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.61 54.0 4.87e-01 100.0% 78.5%
3ripA02 1.20.120.1900 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Gamma-tubulin complex, C-terminal domain 0.59 50.0 3.24e-01 96.6% 27.2%
8d3mA02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.59 50.0 3.37e-01 100.0% 40.8%
5b1aC01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 41.0 3.89e-01 75.9% 63.2%
2lw1A00 1.10.287.380 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain 0.58 42.0 3.70e-01 77.6% 71.8%
1sr2A00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.58 46.0 3.80e-01 93.1% 46.6%
1f7uA02 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.58 51.0 3.98e-01 100.0% 70.4%
1bhaA00 1.10.287.170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.57 45.0 4.27e-01 82.8% 85.1%
3cr3A00 1.25.40.340 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › DhaL domain 0.57 48.0 3.49e-01 100.0% 41.7%
2c42A06 3.40.50.970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains 0.57 48.0 2.95e-01 100.0% 14.5%
2vixA02 1.10.150.630 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.55 40.0 3.63e-01 82.8% 100.0%
4i2aA01 1.10.150.110 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DNA polymerase beta, N-terminal domain-like 0.53 45.0 3.86e-01 96.6% 61.7%
2p0tA01 1.10.60.30 Mainly Alpha › Orthogonal Bundle › Diphtheria Toxin Repressor; domain 2 › PSPTO4464-like domains 0.52 38.0 3.54e-01 81.0% 60.5%
2nr4A02 1.20.58.290 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hypothetical membrane protein ta0354_69_121. 0.50 43.0 4.31e-01 96.6% 98.3%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3608317 142.1.1.0 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.81 71.0 6.40e-01 100.0% 88.7%
1180303 632.19.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A › RICH 0.79 67.0 6.01e-01 96.6% 86.6%
3530722 4177.1.1.150 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › DUF4745 0.79 68.0 5.24e-01 100.0% 80.7%
3277752 2003.1.3.23 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › NAD_binding_9 0.78 63.0 3.55e-01 100.0% 8.3%
1190903 5079.1.1.1 ↗ alpha duplicates or obligate multimers › Magnesium transporter MgtE membrane domain › Magnesium transporter MgtE membrane domain › Magnesium transporter MgtE membrane domain › MgtE 0.78 56.0 3.89e-01 77.6% 27.3%
3587779 138.1.1.0 ↗ alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain 0.77 63.0 5.76e-01 93.1% 70.0%
4597634 632.19.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A 0.76 66.0 5.99e-01 100.0% 95.0%
4034270 632.19.1.3 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A › DUF1542 0.75 63.0 5.68e-01 94.8% 86.3%
4530307 607.1.1.1 ↗ alpha arrays › Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain › Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain › Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain › PEP-utilisers_N 0.75 66.0 5.14e-01 100.0% 80.8%
5035899 601.30.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Helical bundle domain in hypothetical protein PH1320 › Helical bundle domain in hypothetical protein PH1320 › NOG1_N 0.74 63.0 4.70e-01 100.0% 61.3%
4681325 632.19.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A 0.74 62.0 5.63e-01 96.6% 87.5%
3380884 103.4.1.5 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › KIX_2 0.73 63.0 5.81e-01 98.3% 85.3%
5074143 601.30.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Helical bundle domain in hypothetical protein PH1320 › Helical bundle domain in hypothetical protein PH1320 › NOG1_N 0.73 63.0 4.65e-01 100.0% 61.9%
4995193 601.30.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Helical bundle domain in hypothetical protein PH1320 › Helical bundle domain in hypothetical protein PH1320 › NOG1_N 0.72 62.0 4.69e-01 100.0% 66.0%
3291528 3447.1.1.4 ↗ alpha bundles › Isoprenylcysteine carboxyl methyltransferase (ICMT) › Isoprenylcysteine carboxyl methyltransferase (ICMT) › Isoprenylcysteine carboxyl methyltransferase (ICMT) › PEMT 0.72 65.0 4.30e-01 100.0% 81.3%
5005635 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.72 57.0 5.84e-01 93.1% 90.9%
5053994 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.71 62.0 5.73e-01 98.3% 90.7%
3961309 191.1.1.48 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_46 0.71 51.0 3.95e-01 75.9% 35.2%
5035991 3567.1.1.112 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › AI-2E_transport 0.71 58.0 4.24e-01 100.0% 33.1%
4990419 601.30.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Helical bundle domain in hypothetical protein PH1320 › Helical bundle domain in hypothetical protein PH1320 › NOG1_N 0.71 60.0 4.50e-01 100.0% 61.9%
4034213 632.2.1.5 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › DUF1542 0.70 60.0 5.47e-01 98.3% 92.5%
3713190 4336.2.1.1 ↗ alpha duplicates or obligate multimers › YheA/YmcA-like › Protein SUS1 › Protein SUS1 › EnY2 0.69 50.0 4.24e-01 75.9% 50.5%
3209515 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.68 57.0 5.32e-01 98.3% 78.7%
5068318 3755.4.1.0 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.67 60.0 4.35e-01 100.0% 59.4%
4489939 101.35.1.4 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.67 45.0 4.50e-01 70.7% 73.3%
5078343 632.3.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Phosphoprotein XD domain › Phosphoprotein XD domain 0.67 54.0 5.28e-01 100.0% 84.4%
4290583 159.1.1.4 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 › PRA-PH 0.66 48.0 3.77e-01 75.9% 40.9%
5060252 632.23.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Helical linker domain in nicking endonuclease N.BspD6I › Helical linker domain in nicking endonuclease N.BspD6I 0.66 57.0 5.11e-01 100.0% 81.2%
3935140 3755.4.1.0 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.66 53.0 3.72e-01 87.9% 32.2%
1155488 632.2.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › GA 0.65 55.0 5.45e-01 100.0% 90.3%
3725248 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.65 55.0 5.12e-01 98.3% 78.7%
1546111 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.65 53.0 5.15e-01 96.6% 92.5%
3636496 7022.1.1.1 ↗ alpha bundles › central core domain of D-alanyl transfer protein › central core domain of D-alanyl transfer protein › central core domain of D-alanyl transfer protein › MBOAT 0.65 54.0 3.36e-01 94.8% 26.5%
4965834 605.4.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein 0.64 56.0 4.96e-01 100.0% 94.1%
3701095 633.21.1.0 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.63 55.0 4.19e-01 100.0% 64.8%
4297295 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.63 54.0 5.04e-01 100.0% 84.0%
4102865 4025.1.1.1 ↗ alpha complex topology › alpha-helical domain in nickel-iron hydrogenase, large subunit › alpha-helical domain in nickel-iron hydrogenase, large subunit › alpha-helical domain in nickel-iron hydrogenase, large subunit › Complex1_49kDa 0.63 52.0 3.57e-01 91.4% 83.4%
3250976 7515.1.1.0 ↗ a/b three-layered sandwiches › Alkaline phosphatase-like › Alkaline phosphatase-like › Alkaline phosphatase-like 0.61 53.0 3.25e-01 100.0% 91.9%
3880705 277.1.1.0 ↗ a+b two layers › PX domain › PX domain › PX domain 0.60 51.0 4.11e-01 100.0% 70.4%
3839232 4025.1.1.1 ↗ alpha complex topology › alpha-helical domain in nickel-iron hydrogenase, large subunit › alpha-helical domain in nickel-iron hydrogenase, large subunit › alpha-helical domain in nickel-iron hydrogenase, large subunit › Complex1_49kDa 0.60 51.0 3.62e-01 100.0% 44.5%
4051482 11.1.1.154 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › GlgE_dom_N_S 0.59 50.0 3.54e-01 98.3% 32.6%
3230238 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.58 52.0 3.74e-01 100.0% 45.9%
3602612 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.58 51.0 4.81e-01 100.0% 88.6%
3530949 3291.1.1.231 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › PF27745 0.58 50.0 3.77e-01 100.0% 83.3%
4963114 102.1.1.30 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_8 0.57 48.0 4.32e-01 100.0% 100.0%
3617518 632.15.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.57 50.0 4.70e-01 100.0% 90.0%