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NC_019516.2__YP_007006066.1__F417_gp159__00078

Bact-Vir

NC_019516.2__YP_007006066.1__F417_gp159__00078

Identity

Accession:
NC_019516 ↗
Kingdom:
phage

Quality

90.7 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 13-58
PDB
Domain cluster: representative
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3cqxC00 1.20.58.890 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.75 65.0 5.35e-01 100.0% 54.3%
4hkaA02 1.10.287.3810 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.65 40.0 3.94e-01 100.0% 56.9%
2aboA00 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.64 52.0 3.90e-01 100.0% 90.8%
3ff5A00 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 0.62 40.0 3.83e-01 93.5% 55.6%
2qqyA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.61 45.0 3.26e-01 78.3% 83.3%
3d0wA00 1.10.760.20 Mainly Alpha › Orthogonal Bundle › Cytochrome Bc1 Complex; Chain D, domain 2 › Protein of unknown function DUF3243 0.61 50.0 4.25e-01 100.0% 81.4%
1f81A00 1.20.1020.10 Mainly Alpha › Up-down Bundle › CREB-binding Protein; Chain A › TAZ domain 0.61 49.0 4.18e-01 100.0% 66.7%
2va8A03 1.10.3380.30 Mainly Alpha › Orthogonal Bundle › Sec63 N-terminal domain-like fold › 0.61 52.0 3.42e-01 100.0% 48.6%
1u89A00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.60 42.0 3.08e-01 76.1% 77.0%
4r42A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.60 52.0 3.46e-01 100.0% 63.6%
3czbA01 2.40.40.10 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › RlpA-like domain 0.59 44.0 3.06e-01 84.8% 60.6%
2rbdA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.58 43.0 3.01e-01 76.1% 76.0%
1l1lA01 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.58 48.0 2.79e-01 100.0% 31.7%
4ks9A01 1.20.140.90 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Malonyl-CoA decarboxylase, oligemerization domain 0.58 47.0 3.52e-01 100.0% 34.9%
3czpB01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.58 44.0 2.93e-01 87.0% 77.0%
1vdyA00 1.25.40.90 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.58 41.0 2.94e-01 73.9% 45.7%
4fzsA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.57 40.0 2.75e-01 80.4% 81.3%
6ofsA02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.55 41.0 2.67e-01 80.4% 92.2%
1uhsA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.55 37.0 3.64e-01 73.9% 96.3%
3m7gA02 1.10.8.1010 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.55 39.0 3.32e-01 82.6% 68.4%
4wv4B00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.54 37.0 2.97e-01 87.0% 36.6%
1z6tA03 1.10.8.430 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Helical domain of apoptotic protease-activating factors 0.53 40.0 3.40e-01 89.1% 46.9%
4dwlA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.53 36.0 2.79e-01 89.1% 29.6%
4iluA02 1.20.58.1290 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › CarD-like, C-terminal domain 0.53 43.0 3.40e-01 100.0% 72.1%
3d8bB02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.53 40.0 3.37e-01 82.6% 50.0%
1x3kA01 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.51 38.0 2.85e-01 91.3% 48.3%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3497229 109.3.1.0 alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.74 61.0 3.69e-01 100.0% 18.6%
4547686 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 51.0 4.56e-01 80.4% 58.6%
3664301 5069.1.3.60 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › OST3_OST6 0.67 43.0 3.22e-01 100.0% 26.1%
4313221 2004.1.1.552 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T4SS-DNA_transf, TraG-D_C 0.66 55.0 3.18e-01 100.0% 20.8%
3965019 221.4.1.0 a+b two layers › beta-Grasp › Nudix › Nudix 0.64 40.0 2.55e-01 100.0% 13.2%
3474593 216.1.1.0 a+b two layers › UBC-like › UBC-like › UBC-like 0.64 49.0 3.40e-01 87.0% 25.0%
3435543 192.15.1.77 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › OST3_OST6 0.64 43.0 3.25e-01 100.0% 28.7%
3938139 5060.2.1.0 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain 0.63 44.0 3.69e-01 82.6% 41.2%
4964257 2004.1.1.173 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › TrwB_AAD_bind 0.63 53.0 3.09e-01 97.8% 22.1%
3538607 150.3.1.2 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine › Interferon 0.62 52.0 3.61e-01 100.0% 71.4%
3752507 3860.1.1.0 alpha bundles › Myosin VI lever arm › Myosin VI lever arm › Myosin VI lever arm 0.59 48.0 3.62e-01 91.3% 36.5%
3852887 4307.1.1.0 alpha duplicates or obligate multimers › EB1 dimerisation domain-like › EB1 dimerisation domain-like › EB1 dimerisation domain-like 0.59 48.0 4.08e-01 91.3% 56.0%
5054477 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.58 44.0 4.31e-01 84.8% 78.0%
1068633 101.35.1.1 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH2 0.57 40.0 4.06e-01 100.0% 76.1%
2814929 150.1.1.14 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › EncFtn-like 0.53 34.0 3.11e-01 100.0% 42.6%
3635814 5069.1.3.60 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › OST3_OST6 0.52 43.0 3.39e-01 97.8% 61.0%
D2 high residues 62-153
PDB
Domain cluster: representative
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1g5bB00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.77 69.0 5.09e-01 95.7% 43.4%
1nnwB00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.71 65.0 4.70e-01 100.0% 39.0%
2kknA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.66 56.0 4.61e-01 100.0% 52.9%
2czrA01 3.40.1350.70 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › TBP-interacting protein, N-terminal domain 0.62 44.0 4.25e-01 93.5% 64.2%
2yvtA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.59 52.0 3.84e-01 100.0% 52.7%
1uf3A00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.58 50.0 3.85e-01 100.0% 69.2%
6lr1A00 3.20.20.30 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Luciferase-like domain 0.55 45.0 2.91e-01 90.2% 96.0%
3g98A00 3.10.310.40 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.55 47.0 4.43e-01 95.7% 99.1%
2dxnA02 3.30.750.180 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › GpdQ, beta-strand dimerisation domain 0.54 42.0 3.76e-01 82.6% 90.5%
2nyuB00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 44.0 3.66e-01 95.7% 89.6%
1ej0A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 43.0 3.62e-01 95.7% 96.1%
7xsyA01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.52 43.0 2.97e-01 95.7% 85.8%
2cw5C01 3.40.50.10790 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › S-adenosyl-l-methionine hydroxide adenosyltransferase, N-terminal 0.52 42.0 3.64e-01 90.2% 93.4%
4pr3A00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.51 43.0 3.40e-01 95.7% 97.1%
4mptA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 44.0 3.83e-01 100.0% 95.9%
3brsA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.50 43.0 3.88e-01 98.9% 91.8%
1sxjA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 38.0 3.18e-01 83.7% 83.8%
6jp6D01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 42.0 3.33e-01 100.0% 93.3%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3786082 246.2.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.78 72.0 4.80e-01 100.0% 44.4%
3712536 246.2.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.78 72.0 4.70e-01 100.0% 41.5%
3435347 246.2.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.77 71.0 4.79e-01 100.0% 35.6%
5077075 246.2.1.9 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos_2 0.71 65.0 4.71e-01 97.8% 44.7%
5001467 246.2.1.9 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos_2 0.71 65.0 4.88e-01 100.0% 47.0%
4975840 246.2.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.68 62.0 4.65e-01 100.0% 56.4%
4990403 246.2.1.9 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos_2 0.68 62.0 4.77e-01 100.0% 49.5%
4995790 246.2.1.0 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases 0.67 61.0 4.27e-01 100.0% 37.1%
136640 246.2.1.9 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos_2 0.66 56.0 4.62e-01 100.0% 53.2%
5059469 2008.1.1.114 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF4143 0.63 44.0 4.36e-01 90.2% 68.4%
5068243 246.2.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.61 55.0 4.12e-01 100.0% 65.7%
4957122 246.2.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.59 53.0 4.06e-01 100.0% 70.5%
4959003 2008.1.1.114 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF4143 0.59 40.0 3.97e-01 85.9% 67.4%
5078497 7512.1.1.0 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase 0.58 42.0 3.36e-01 88.0% 38.9%
4960251 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.58 49.0 4.39e-01 96.7% 65.4%
3838245 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.58 42.0 4.30e-01 91.3% 78.9%
4402765 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.58 49.0 4.38e-01 96.7% 66.7%
5000595 246.2.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.57 50.0 3.93e-01 100.0% 77.6%
4137234 246.2.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.57 50.0 3.71e-01 100.0% 66.8%
3723364 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.55 49.0 4.91e-01 97.8% 98.9%
3297545 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.54 46.0 3.11e-01 97.8% 75.8%
4961861 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.54 46.0 3.73e-01 95.7% 55.7%
3487038 2003.1.5.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.53 45.0 3.39e-01 95.7% 89.4%
4991381 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.53 40.0 3.73e-01 100.0% 63.0%
5029013 7512.1.1.0 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase 0.52 40.0 3.40e-01 87.0% 49.0%
3317203 2003.1.5.15 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ 0.52 44.0 3.20e-01 98.9% 72.0%
5012331 7518.1.1.7 a/b three-layered sandwiches › PK C-terminal domain-like › PK C-terminal domain-like › PK C-terminal domain-like › DacZ_T 0.52 39.0 3.84e-01 95.7% 74.0%
3961437 2007.1.2.0 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.52 29.0 2.91e-01 75.0% 49.5%
None 0.52 43.0 3.38e-01 94.6% 75.7%
3387918 207.9.1.3 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pentapeptide repeats › Pentapeptide repeats › Pentapeptide_3 0.51 37.0 2.67e-01 79.3% 49.7%
5057692 7512.1.1.30 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_4 0.51 41.0 3.32e-01 90.2% 100.0%
4473930 327.4.1.1 a+b two layers › Alpha-lytic protease prodomain-like › YhbC-like, N-terminal domain › YhbC-like, N-terminal domain › RimP_N 0.51 31.0 3.32e-01 80.4% 70.0%
4965514 2008.1.1.227 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF5784 0.51 43.0 3.33e-01 95.7% 63.7%
4387318 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.50 35.0 2.63e-01 73.9% 28.5%
3266012 2003.1.5.15 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ 0.50 41.0 3.26e-01 95.7% 77.3%