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ON470627.1__URC10686.1__X__00022

Bact-Vir

ON470627.1__URC10686.1__X__00022

Identity

Accession:
ON470627 ↗
Kingdom:
phage

Quality

75.6 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 4-49
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF14000.12 best Packaging_FI 28.9 2.00e-06 100.0% 33.6%
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ilkA02 1.10.8.590 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.77 67.0 5.95e-01 100.0% 94.1%
3obfA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.72 62.0 4.12e-01 95.7% 34.7%
3iieB03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.72 59.0 4.81e-01 91.3% 78.8%
1gcvA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.71 55.0 3.83e-01 82.6% 77.1%
2gsvA00 6.10.140.40 Special › Helix non-globular › Helix Hairpins › 0.71 51.0 4.45e-01 76.1% 58.2%
4fbcA01 3.40.420.10 Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 0.70 50.0 3.37e-01 76.1% 56.3%
4neoA00 1.10.1200.10 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like 0.69 48.0 3.95e-01 95.7% 41.0%
3a8rA01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.68 42.0 3.17e-01 87.0% 25.7%
1m3sB00 3.40.50.10490 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glucose-6-phosphate isomerase like protein; domain 1 0.67 57.0 3.87e-01 100.0% 68.9%
2ckwA03 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.67 50.0 3.69e-01 91.3% 31.9%
5es8A03 1.10.1200.10 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like 0.66 45.0 3.86e-01 93.5% 45.8%
1np7A02 1.25.40.80 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.65 52.0 3.81e-01 87.0% 85.7%
3ic9A02 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.64 48.0 4.20e-01 82.6% 92.9%
1cbyA00 3.40.198.10 Alpha Beta › 3-Layer(aba) Sandwich › Delta-endotoxin CytB › Delta-endotoxin CytB-like 0.64 46.0 2.94e-01 78.3% 65.6%
1a3qA01 2.60.40.340 Mainly Beta › Sandwich › Immunoglobulin-like › Rel homology domain (RHD), DNA-binding domain 0.63 48.0 3.18e-01 82.6% 24.0%
2qbyA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 47.0 3.34e-01 93.5% 23.7%
3rpzA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.62 52.0 3.25e-01 100.0% 26.7%
3cl3A01 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.62 45.0 3.89e-01 93.5% 46.4%
2r18A02 1.10.8.880 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Birnavirus VP3 protein, domain 2 0.61 48.0 4.42e-01 84.8% 91.5%
4ou7A00 1.10.8.1180 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.61 51.0 4.38e-01 91.3% 98.6%
1x74A04 3.30.1540.10 Alpha Beta › 2-Layer Sandwich › formyl-coa transferase, domain 3 › formyl-coa transferase, domain 3 0.60 52.0 4.24e-01 100.0% 81.3%
2z3xA00 6.10.10.80 Special › Helix non-globular › Helicase, Ruva Protein; domain 3 › Small, acid-soluble spore protein, alpha/beta type-like 0.60 43.0 4.15e-01 80.4% 66.1%
3e22A03 1.10.287.600 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.59 46.0 4.40e-01 84.8% 85.2%
2cfoA04 1.10.8.70 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Glutamate-tRNA synthetase, class I, anticodon-binding domain 1 0.58 43.0 4.18e-01 84.8% 85.2%
1s4eG02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.57 48.0 3.30e-01 100.0% 28.1%
3tw6A06 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.57 44.0 4.25e-01 89.1% 74.1%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3589151 829.1.1.2 a+b duplicates or obligate multimers › NinB › NinB › NinB › HNHc_6 0.83 71.0 5.10e-01 95.7% 56.8%
4422561 386.1.1.10 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › MAT1 0.81 57.0 4.66e-01 73.9% 47.5%
4975876 206.1.3.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.79 67.0 3.94e-01 97.8% 18.1%
4010451 3788.1.1.15 alpha bundles › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) › PF27202 0.78 66.0 5.65e-01 97.8% 85.3%
3780651 3602.1.1.0 alpha bundles › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain 0.76 52.0 4.56e-01 71.7% 87.7%
3487611 101.1.8.3 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Topoisom_I,Topo_C_assoc 0.75 51.0 4.30e-01 71.7% 50.7%
3899929 5076.1.1.1 alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.72 55.0 3.35e-01 82.6% 43.4%
3573038 4207.1.1.99 alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › RNA polymerase II holoenzyme component SRB7 (MED21) › PF28139 0.72 50.0 4.07e-01 73.9% 44.4%
3636816 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.71 50.0 3.03e-01 73.9% 17.8%
3415935 103.1.1.0 alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.71 41.0 4.17e-01 97.8% 57.8%
3707811 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.70 61.0 3.59e-01 100.0% 29.1%
3598953 206.1.3.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.70 50.0 2.90e-01 78.3% 8.9%
5046134 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.70 60.0 4.15e-01 95.7% 82.8%
5047797 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 0.69 50.0 4.18e-01 76.1% 62.7%
3298325 3846.1.1.0 alpha bundles › IcmR › IcmR › IcmR 0.69 51.0 5.21e-01 80.4% 84.4%
3704169 3285.1.1.0 alpha duplicates or obligate multimers › Alix V domain › Alix V domain › Alix V domain 0.68 60.0 3.79e-01 100.0% 78.3%
5019790 206.1.3.117 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › PEP-utilizers_C 0.67 50.0 2.78e-01 89.1% 8.6%
3506035 170.1.1.0 alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.65 56.0 4.09e-01 100.0% 40.8%
4473372 150.8.1.5 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE › EspA_EspE 0.65 56.0 3.73e-01 100.0% 72.4%
3628497 4082.1.1.0 alpha duplicates or obligate multimers › Hairy Orange domain › Hairy Orange domain › Hairy Orange domain 0.60 45.0 4.38e-01 82.6% 74.0%
3482354 283.1.1.1 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › Creatinase/aminopeptidase › Creatinase/aminopeptidase › Peptidase_M24 0.59 52.0 3.53e-01 95.7% 36.8%
4342809 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.58 47.0 3.37e-01 89.1% 48.8%
2507496 206.1.3.24 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_lig_T4_1 0.55 43.0 2.56e-01 84.8% 35.3%
4960548 3922.1.1.0 alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.55 47.0 3.14e-01 95.7% 41.1%
D2 high residues 90-133
PDB
Domain cluster: representative
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2lsmA00 3.40.5.70 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › DNA packaging chaperone protein FI, C-terminal beta-strand domain 0.83 74.0 6.62e-01 100.0% 73.8%
2e9xB01 3.40.5.50 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.73 62.0 5.46e-01 100.0% 63.6%
3zjaA01 2.60.40.1890 Mainly Beta › Sandwich › Immunoglobulin-like › PCu(A)C copper chaperone 0.65 53.0 4.20e-01 100.0% 83.0%
1vx4404 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.65 54.0 3.90e-01 100.0% 54.3%
1v30A00 3.10.490.10 Alpha Beta › Roll › Hypothetical upf0131 protein ytfp › Gamma-glutamyl cyclotransferase-like 0.62 53.0 3.91e-01 100.0% 58.5%
6m9sD01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 48.0 3.79e-01 93.2% 57.4%
1bdoA00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.60 41.0 3.46e-01 72.7% 92.5%
1cauA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.59 49.0 3.28e-01 95.5% 42.5%
6zzmA01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.59 47.0 3.11e-01 100.0% 86.4%
3l60A01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.58 47.0 3.14e-01 100.0% 85.9%
4p1mB01 3.30.160.880 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Cell division protein ZapA protomer, N-terminal domain 0.58 36.0 3.65e-01 100.0% 60.0%
1ifrA00 2.60.40.1260 Mainly Beta › Sandwich › Immunoglobulin-like › Lamin Tail domain 0.57 46.0 3.51e-01 95.5% 79.6%
3r74B02 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.57 40.0 2.72e-01 77.3% 27.6%
3winE03 2.60.120.1090 Mainly Beta › Sandwich › Jelly Rolls › 0.56 46.0 3.62e-01 100.0% 78.2%
2ra9A02 2.30.270.10 Mainly Beta › Roll › duf1285 protein fold › duf1285 protein 0.56 46.0 4.01e-01 100.0% 84.9%
5vmzA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.56 32.0 3.35e-01 100.0% 59.0%
1twyD02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.54 39.0 2.91e-01 81.8% 92.6%
6l4cA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.54 46.0 3.09e-01 100.0% 60.9%
3upuA03 2.30.30.780 Mainly Beta › Roll › SH3 type barrels. › 0.54 47.0 3.38e-01 100.0% 90.8%
4lejA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.54 45.0 3.07e-01 100.0% 63.5%
5aj3F00 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.53 43.0 3.25e-01 97.7% 64.2%
1z6hA00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.53 36.0 3.16e-01 70.5% 91.7%
2cs4A00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 36.0 3.00e-01 79.5% 80.0%
2icuA00 3.90.1680.10 Alpha Beta › Alpha-Beta Complex › hypothetical protein yedk fold › SOS response associated peptidase-like 0.51 37.0 2.50e-01 84.1% 55.7%
2zuoA09 2.30.30.570 Mainly Beta › Roll › SH3 type barrels. › 0.51 41.0 3.81e-01 100.0% 90.5%
2ztbA03 2.60.40.3040 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 33.0 3.34e-01 70.5% 70.8%
3d8kD00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.50 35.0 2.18e-01 79.5% 86.1%
4oifA02 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.50 41.0 2.71e-01 100.0% 77.9%
ECOD (22)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4133267 4076.3.1.3 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › SLD5_C 0.78 70.0 6.49e-01 100.0% 80.0%
4932084 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.78 67.0 6.42e-01 100.0% 84.0%
4991671 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.77 69.0 6.66e-01 100.0% 88.0%
4944185 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.74 64.0 5.53e-01 100.0% 63.1%
4976498 4076.3.1.5 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.74 67.0 5.99e-01 100.0% 76.7%
4939413 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.73 65.0 6.28e-01 100.0% 90.0%
5055750 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.73 63.0 6.03e-01 100.0% 84.0%
3299789 2004.1.1.26 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin 0.63 33.0 2.26e-01 86.4% 13.3%
4946925 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.59 41.0 3.60e-01 77.3% 96.0%
3895159 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.59 51.0 4.68e-01 100.0% 96.7%
4929832 304.5.1.0 a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like 0.59 50.0 3.88e-01 100.0% 75.0%
3585395 10.12.1.62 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › PMI_typeI_cat 0.57 45.0 3.19e-01 90.9% 28.3%
4446853 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.57 45.0 3.87e-01 95.5% 91.3%
5074749 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.56 42.0 3.83e-01 93.2% 94.3%
3203486 149.1.1.1 alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.54 43.0 2.45e-01 88.6% 15.6%
4133488 12.1.1.0 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.54 38.0 2.85e-01 79.5% 37.0%
4635289 304.48.1.0 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.53 43.0 2.55e-01 100.0% 29.8%
5019938 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.52 38.0 2.59e-01 93.2% 91.3%
4144048 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.52 40.0 3.58e-01 97.7% 100.0%
4033197 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 40.0 3.52e-01 97.7% 93.8%
3032850 2003.1.2.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.51 41.0 2.91e-01 100.0% 39.5%
3948934 10.12.1.0 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.51 41.0 3.27e-01 95.5% 52.0%