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NC_048821.1__YP_009853564.1__HWC77_gp212__00212

Bact-Vir

NC_048821.1__YP_009853564.1__HWC77_gp212__00212

Identity

Accession:
NC_048821 ↗
Kingdom:
phage

Quality

79.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Chimalliviridae› Aphroditevirus› Photobacterium_phage_PDCC-1

TaxID: 2664246

Cluster

View cluster (3 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 3-97
PDB
Domain cluster: rep: NC_070999.1__YP_010674978.1__PQC65_gp065__00065__D5-99
CATH (44)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2iboA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.77 37.0 3.82e-01 100.0% 48.3%
1b24A01 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.70 39.0 3.93e-01 100.0% 53.7%
3f56A01 3.30.70.1710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › BMC (bacterial microcompartment) domain 0.70 36.0 3.46e-01 100.0% 43.4%
2x3gA00 3.30.70.1910 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.69 43.0 3.98e-01 100.0% 50.9%
3eeeA00 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.69 38.0 3.04e-01 100.0% 27.7%
7vkkB01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.69 33.0 2.49e-01 100.0% 18.2%
4eqmA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.69 41.0 4.22e-01 98.9% 62.9%
4nzrM03 3.30.110.180 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › 0.68 37.0 3.41e-01 100.0% 40.7%
2mklC00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.68 36.0 3.47e-01 100.0% 45.7%
3grzB00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.68 35.0 2.73e-01 100.0% 23.3%
1x19A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.68 35.0 2.98e-01 100.0% 29.4%
5suhA02 3.30.70.1710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › BMC (bacterial microcompartment) domain 0.68 35.0 3.46e-01 100.0% 45.6%
2z7rA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.67 34.0 3.60e-01 100.0% 53.6%
2nxcA03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.67 33.0 2.83e-01 100.0% 28.1%
4d9uA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.67 36.0 3.80e-01 98.9% 56.8%
2oikA00 3.30.428.10 Alpha Beta › 2-Layer Sandwich › HIT family, subunit A › HIT-like 0.66 45.0 3.97e-01 100.0% 48.2%
2nwaA01 2.40.240.20 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 0.66 37.0 4.10e-01 100.0% 69.3%
5mmjh01 3.30.1370.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.66 33.0 3.66e-01 100.0% 58.7%
4q9bA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.66 34.0 3.41e-01 100.0% 47.5%
3zh8C01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.65 39.0 3.69e-01 98.9% 49.6%
3fxzA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.65 37.0 3.66e-01 98.9% 54.1%
1zysA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.65 38.0 3.80e-01 100.0% 57.9%
4zj9A00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.64 53.0 5.36e-01 98.9% 88.2%
5suhB01 3.30.70.1710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › BMC (bacterial microcompartment) domain 0.64 36.0 3.57e-01 100.0% 51.5%
2bkkA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.64 36.0 3.75e-01 97.9% 58.9%
4evuB00 3.30.1660.10 Alpha Beta › 2-Layer Sandwich › Dodecin subunit-like › Flavin-binding protein dodecin 0.64 36.0 4.14e-01 100.0% 76.5%
2clqA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.64 35.0 3.74e-01 100.0% 60.0%
6fucA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.63 32.0 3.34e-01 71.6% 52.3%
1zkdA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.63 33.0 2.72e-01 100.0% 26.7%
1j5uA01 3.55.10.10 Alpha Beta › 3-Layer(bab) Sandwich › Archease, Possible Chaperone; Chain: A; domain 1 › Archease domain 0.63 46.0 4.32e-01 86.3% 63.2%
1i72A00 3.60.90.10 Alpha Beta › 4-Layer Sandwich › S-adenosylmethionine decarboxylase › S-adenosylmethionine decarboxylase 0.62 36.0 2.64e-01 100.0% 21.9%
4iscA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.61 30.0 2.57e-01 100.0% 26.9%
4af3A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.60 36.0 3.80e-01 100.0% 64.8%
4feuF01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.60 30.0 3.38e-01 70.5% 61.6%
2rioA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.59 33.0 3.56e-01 95.8% 62.2%
5f9eA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.59 37.0 3.27e-01 100.0% 43.3%
2c47A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.59 34.0 3.79e-01 100.0% 72.6%
3nynA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.58 35.0 3.06e-01 100.0% 38.8%
4js8A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.57 35.0 3.67e-01 100.0% 65.2%
1vdhA01 3.30.70.1030 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Apc35880; domain 1 0.57 39.0 3.62e-01 100.0% 55.4%
2y7jA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.56 37.0 3.79e-01 98.9% 68.9%
4jhyA00 3.30.530.80 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › 0.53 44.0 3.77e-01 100.0% 55.1%
3v8hC00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.53 43.0 3.11e-01 90.5% 80.6%
4atnA03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 41.0 3.32e-01 100.0% 46.2%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5055367 304.12.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 0.74 44.0 4.44e-01 100.0% 58.9%
4277035 310.3.1.4 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › GspL_C 0.74 38.0 4.09e-01 100.0% 57.5%
3286580 304.159.1.1 ↗ a+b two layers › Alpha-beta plaits › Alpha-beta plait domain in NisB › Alpha-beta plait domain in NisB › Lant_dehydr_C 0.74 45.0 4.43e-01 100.0% 58.0%
4024171 328.3.1.1 ↗ a+b two layers › IF3-like › Translation initiation factor IF3, C-terminal domain › Translation initiation factor IF3, C-terminal domain › IF3_C 0.72 42.0 4.23e-01 100.0% 57.9%
4975452 873.1.1.0 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.71 44.0 4.17e-01 100.0% 52.2%
3616815 304.28.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.70 43.0 5.25e-01 100.0% 98.3%
4457354 298.1.1.13 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › AcetDehyd-dimer 0.70 42.0 3.69e-01 100.0% 40.7%
None — 0.70 36.0 2.78e-01 100.0% 22.7%
4860672 2003.1.5.54 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_10 0.69 35.0 2.41e-01 100.0% 14.8%
4009049 872.4.1.1 ↗ a+b two layers › Dodecin subunit-like › YdgH-like › YdgH-like › YdgH_BhsA-like 0.67 37.0 3.97e-01 100.0% 62.5%
4555558 304.120.1.6 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › ThiI_fer 0.67 41.0 4.50e-01 100.0% 76.0%
3968428 304.36.1.1 ↗ a+b two layers › Alpha-beta plaits › YajQ-like › YajQ-like › DUF520 0.66 38.0 3.92e-01 100.0% 60.0%
3964094 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.65 43.0 3.76e-01 100.0% 43.3%
4135983 304.36.1.1 ↗ a+b two layers › Alpha-beta plaits › YajQ-like › YajQ-like › DUF520 0.65 37.0 3.72e-01 100.0% 54.0%
4683271 327.16.1.3 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system › Secretin_N 0.64 38.0 4.30e-01 70.5% 78.6%
4927828 328.1.1.0 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like 0.64 42.0 4.16e-01 97.9% 64.0%
3171702 246.3.1.4 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos2 0.64 46.0 3.11e-01 100.0% 21.6%
None — 0.62 33.0 2.42e-01 100.0% 17.7%
4974485 873.1.1.22 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › PF25939 0.61 44.0 3.48e-01 100.0% 36.6%
4956113 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.61 35.0 3.82e-01 100.0% 67.5%
3583617 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.59 39.0 3.45e-01 100.0% 46.8%
4970120 321.1.1.1 ↗ a+b two layers › Glutamine synthetase-like › Glutamine synthetase/guanido kinase › Glutamine synthetase/guanido kinase › Gln-synt_C 0.58 41.0 2.75e-01 100.0% 19.4%
3997189 305.1.1.0 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase 0.58 39.0 4.07e-01 100.0% 76.5%
3562325 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.57 38.0 2.21e-01 100.0% 7.5%
5065076 873.1.1.0 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.56 41.0 3.39e-01 100.0% 43.2%
3932944 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.55 41.0 2.70e-01 78.9% 43.2%
5082791 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.54 38.0 3.12e-01 100.0% 40.0%
3904001 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.53 33.0 3.42e-01 100.0% 66.7%
3183837 246.3.1.4 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos2 0.53 42.0 2.50e-01 100.0% 10.7%
4265082 872.1.1.11 ↗ a+b two layers › Dodecin subunit-like › Flavin-binding protein dodecin-like › Flavin-binding protein dodecin-like › PF27391 0.52 38.0 3.96e-01 100.0% 85.9%
4188964 2003.1.5.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ 0.51 42.0 3.33e-01 100.0% 43.3%
2968694 2007.3.1.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Succinyl-CoA synthetase domains › Succinyl-CoA synthetase domains 0.51 45.0 3.59e-01 100.0% 49.8%
4116230 2003.1.5.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ 0.51 42.0 3.36e-01 100.0% 46.7%
4027425 212.1.1.0 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like 0.51 44.0 3.34e-01 100.0% 98.4%
4187841 2003.1.5.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ 0.50 42.0 3.37e-01 100.0% 46.5%
3558619 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.50 40.0 2.81e-01 88.4% 63.5%