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NC_070907.1__YP_010663896.1__PQA59_gp09__00009

Bact-Vir

NC_070907.1__YP_010663896.1__PQA59_gp09__00009

Identity

Accession:
NC_070907 ↗
Kingdom:
phage

Quality

86.0 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 medium residues 48-100
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF17399.8 best DUF5405 66.2 4.00e-18 90.6% 54.5%
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3dd9D02 6.10.140.2060 Special › Helix non-globular › Helix Hairpins › 0.86 63.0 7.01e-01 79.2% 100.0%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.81 57.0 4.65e-01 77.4% 42.9%
1b10A00 1.10.790.10 Mainly Alpha › Orthogonal Bundle › Major Prion Protein › Prion/Doppel protein, beta-ribbon domain 0.81 72.0 5.74e-01 100.0% 57.7%
1hlvA02 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.79 57.0 5.50e-01 84.9% 68.3%
4jd9G00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.78 63.0 4.87e-01 92.5% 40.0%
1rp3A01 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.78 62.0 5.31e-01 96.2% 55.3%
1e7uA05 1.10.1070.11 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › Phosphatidylinositol 3-/4-kinase, catalytic domain 0.76 58.0 3.89e-01 81.1% 71.7%
2rdcA00 1.10.287.800 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 0.76 59.0 4.33e-01 84.9% 33.1%
1j78A05 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.76 57.0 5.52e-01 84.9% 73.3%
1icrA00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.75 63.0 4.11e-01 92.5% 22.7%
4m70B00 1.10.246.200 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › WPP domain 0.75 61.0 5.17e-01 94.3% 53.8%
3vm9A02 6.10.140.2110 Special › Helix non-globular › Helix Hairpins › 0.74 63.0 6.24e-01 98.1% 91.2%
3r0qA02 2.70.160.11 Mainly Beta › Distorted Sandwich › Hnrnp arginine n-methyltransferase1 › Hnrnp arginine n-methyltransferase1 0.72 63.0 4.21e-01 100.0% 64.4%
4nooB00 1.10.8.1160 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.71 63.0 5.21e-01 100.0% 57.9%
2gw1A02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.71 50.0 2.98e-01 83.0% 10.8%
7s0rB01 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.71 59.0 5.33e-01 96.2% 82.9%
2ktmA00 1.10.790.10 Mainly Alpha › Orthogonal Bundle › Major Prion Protein › Prion/Doppel protein, beta-ribbon domain 0.71 59.0 5.57e-01 100.0% 92.6%
2itbB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.69 62.0 4.13e-01 100.0% 50.5%
1t33A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.69 55.0 4.06e-01 94.3% 34.8%
3nbxX03 1.20.58.1510 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 54.0 4.34e-01 84.9% 47.5%
2hszA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.68 52.0 4.66e-01 83.0% 61.3%
8d7hD01 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.67 58.0 4.11e-01 100.0% 94.8%
6qelA01 1.10.860.10 Mainly Alpha › Orthogonal Bundle › DNAb Helicase; Chain A › DNAb Helicase; Chain A 0.67 55.0 3.96e-01 90.6% 58.9%
1x04A00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.67 57.0 3.80e-01 94.3% 78.5%
4i8oA03 1.10.8.1130 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Bacterial toxin RNase RnlA/LsoA, C-terminal Dmd-binding domain 0.67 49.0 4.55e-01 79.2% 61.2%
6mh4A03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.66 51.0 4.50e-01 88.7% 57.0%
1fcqA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.66 57.0 3.53e-01 100.0% 20.7%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 56.0 5.02e-01 92.5% 69.9%
2reoA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.66 55.0 3.77e-01 98.1% 27.5%
8h72B01 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.66 57.0 3.56e-01 100.0% 29.6%
2w02B01 1.10.150.640 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › AcsD, thumb domain, helical bundle 0.65 56.0 5.07e-01 100.0% 100.0%
1e1dA02 1.20.1270.20 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.65 56.0 4.78e-01 96.2% 79.8%
3rm5B02 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.65 55.0 3.61e-01 96.2% 92.0%
3u9rB02 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.65 53.0 3.48e-01 100.0% 31.2%
2l3lA01 1.20.58.1250 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Tubulin Binding Cofactor C, N-terminal domain 0.65 47.0 3.86e-01 83.0% 40.6%
3vkgA02 1.20.140.100 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Dynein motor heavy chain, linker domain, N-terminal subdomain 0.64 57.0 4.09e-01 98.1% 49.7%
3k6hA01 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.64 51.0 3.63e-01 90.6% 44.3%
4etrB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.63 53.0 3.93e-01 88.7% 40.2%
2k0nA00 1.10.246.20 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › Coactivator CBP, KIX domain 0.63 52.0 4.59e-01 98.1% 77.6%
4hr1A00 1.20.1270.410 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.63 54.0 4.15e-01 94.3% 75.4%
3d5lA03 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 0.63 45.0 4.59e-01 77.4% 80.8%
2oo2A00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.62 46.0 4.15e-01 81.1% 75.0%
3u3iA02 1.20.58.1110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 54.0 4.32e-01 100.0% 51.9%
2c5iT00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 56.0 4.61e-01 100.0% 59.6%
2lm9A00 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 53.0 4.41e-01 100.0% 55.2%
3f2bA05 6.10.50.10 Special › Helix non-globular › Insulin-like, subunit E › 0.60 44.0 4.62e-01 90.6% 89.6%
2oq1A02 1.10.930.10 Mainly Alpha › Orthogonal Bundle › Syk Kinase; Chain A, domain 2 › Syk Kinase; Chain A, domain 2 0.60 45.0 4.85e-01 83.0% 95.6%
2oyoA02 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.59 47.0 3.58e-01 86.8% 36.8%
3keyA01 1.10.10.1080 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Stn1, N-terminal wHTH domain 0.59 48.0 4.12e-01 92.5% 78.2%
5c9gA02 1.10.12.10 Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › Lyase 2-enoyl-coa Hydratase, Chain A, domain 2 0.57 44.0 4.30e-01 83.0% 100.0%
2go7A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.55 45.0 4.15e-01 88.7% 100.0%
ECOD (53)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3588971 6026.1.1.0 alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain 0.91 85.0 7.40e-01 100.0% 70.7%
4000709 101.1.1.21 alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc5 0.88 70.0 6.24e-01 83.0% 68.6%
3643105 6026.1.1.1 alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain › cwf21 0.87 75.0 5.26e-01 100.0% 32.3%
3280651 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.87 79.0 5.05e-01 100.0% 23.0%
3408346 633.24.1.2 alpha bundles › Bromodomain-like › RABEX-5 helical domain › RABEX-5 helical domain › DUF5601 0.86 72.0 6.31e-01 92.5% 64.0%
5000270 3646.1.1.0 alpha complex topology › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters 0.84 73.0 4.81e-01 100.0% 24.5%
4931359 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.84 58.0 5.50e-01 77.4% 63.3%
5051020 1076.1.1.1 alpha bundles › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Rce1-like 0.83 75.0 4.67e-01 100.0% 21.9%
4994506 8001.1.1.3 alpha arrays › N-terminal domain of large tumor antigen › N-terminal domain of large tumor antigen › N-terminal domain of large tumor antigen › PF27234 0.83 71.0 5.75e-01 98.1% 51.6%
3585753 142.1.1.0 alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.83 66.0 5.49e-01 88.7% 51.1%
5069130 6026.1.1.0 alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain 0.83 68.0 6.94e-01 90.6% 96.0%
4435237 547.1.1.1 alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.81 72.0 5.74e-01 100.0% 51.4%
4518250 109.4.1.1660 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF27570 0.81 71.0 4.19e-01 100.0% 14.6%
4232288 4275.1.1.10 alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › NifW 0.79 60.0 5.50e-01 83.0% 62.9%
4079949 2003.1.1.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.79 69.0 4.40e-01 100.0% 20.8%
None 0.77 67.0 4.25e-01 100.0% 20.0%
3438464 5063.1.1.0 alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK 0.77 63.0 6.53e-01 90.6% 96.0%
4327215 547.1.1.1 alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.77 67.0 5.27e-01 100.0% 47.8%
4564044 2003.1.1.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.77 67.0 4.30e-01 100.0% 23.8%
3278450 547.1.1.1 alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.77 67.0 5.89e-01 100.0% 68.8%
3643372 3681.1.1.0 a+b complex topology › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit 0.77 68.0 6.37e-01 100.0% 83.1%
None 0.76 66.0 4.18e-01 100.0% 20.4%
3982421 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.75 55.0 4.88e-01 84.9% 54.7%
4039262 2003.1.1.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.75 65.0 4.06e-01 100.0% 18.6%
4166427 109.4.1.307 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Tho2 0.75 64.0 3.73e-01 98.1% 11.1%
3624309 5054.1.1.8 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans_2 0.75 65.0 4.79e-01 98.1% 37.8%
3554931 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.75 52.0 5.23e-01 79.2% 72.2%
3686904 2486.1.1.3 a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase › Carboxyl_trans 0.73 64.0 4.34e-01 100.0% 45.1%
4436943 101.11.1.1 alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.73 62.0 5.46e-01 98.1% 63.7%
4584776 101.1.15.3 alpha arrays › HTH › HTH › HAT1, C-terminal domain › HAT1_C_fung 0.73 58.0 3.72e-01 90.6% 23.1%
4934293 4993.1.1.0 extended segments › Glu-tRNAGln amidotransferase C subunit › Glu-tRNAGln amidotransferase C subunit › Glu-tRNAGln amidotransferase C subunit 0.71 61.0 5.29e-01 94.3% 65.0%
4569675 101.11.1.1 alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.71 63.0 5.07e-01 100.0% 67.6%
3684478 632.1.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.71 52.0 4.70e-01 79.2% 58.6%
3681859 5069.1.3.54 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › Per1 0.71 58.0 4.44e-01 92.5% 40.0%
4012407 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.70 51.0 4.89e-01 77.4% 70.0%
57654 4970.1.1.0 alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.69 49.0 4.92e-01 83.0% 74.1%
3222941 5054.1.1.59 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans, Ion_trans_2 0.69 59.0 4.08e-01 98.1% 47.0%
3904078 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.68 60.0 5.45e-01 100.0% 78.1%
4371007 101.11.1.1 alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.68 59.0 5.06e-01 98.1% 63.5%
3694629 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.66 57.0 4.89e-01 92.5% 65.0%
3973158 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.66 56.0 4.83e-01 92.5% 65.0%
3488979 192.5.1.0 alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat 0.66 56.0 4.17e-01 92.5% 43.2%
4877579 605.3.1.1 alpha duplicates or obligate multimers › ROP-like › Nonstructural protein ns2, Nep, M1-binding domain › Nonstructural protein ns2, Nep, M1-binding domain › Flu_NS2 0.66 53.0 5.31e-01 100.0% 85.5%
3626769 192.5.1.14 alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat › HR1_TOCA 0.66 56.0 4.61e-01 92.5% 60.0%
4010395 622.4.1.26 alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › HisKA 0.65 55.0 5.00e-01 92.5% 72.9%
3180974 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.64 54.0 5.37e-01 92.5% 89.1%
3289263 605.1.1.4 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_3 0.63 57.0 5.13e-01 98.1% 82.9%
3680918 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.63 55.0 5.20e-01 100.0% 92.3%
4304782 101.11.1.1 alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.63 54.0 4.66e-01 98.1% 64.7%
3924799 2484.1.1.107 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_IS1595 0.62 47.0 3.46e-01 86.8% 70.0%
3612915 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.62 56.0 4.43e-01 100.0% 53.3%
4626953 604.5.1.3 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › ArAE_1_C 0.62 53.0 4.36e-01 92.5% 64.4%
2979225 507.1.1.1 alpha arrays › DnaB helicase N-terminal domain-related › DnaB helicase N-terminal domain-related › DnaB helicase N-terminal domain-related › DnaB 0.59 50.0 3.55e-01 100.0% 31.2%