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NC_021796.1__YP_008241389.1__Phi38-1_gp008__00008

Bact-Vir

NC_021796.1__YP_008241389.1__Phi38-1_gp008__00008

Identity

Accession:
NC_021796 ↗
Kingdom:
phage

Quality

68.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pervagoviridae› Callevirus› Cellulophaga_phage_phi38:1

TaxID: 1327977

Cluster

Singleton — not in a non-trivial cluster

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 1-47
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.92 84.0 6.09e-01 100.0% 41.9%
2yn7A00 1.10.3160.10 Mainly Alpha › Orthogonal Bundle › Bbcrasp-1 › Bbcrasp-1 0.91 82.0 5.16e-01 100.0% 22.0%
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.89 79.0 5.97e-01 100.0% 43.1%
3hpcX00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.86 75.0 5.11e-01 100.0% 29.0%
2n7zA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.86 58.0 4.32e-01 74.5% 31.1%
2nn4A00 1.10.287.760 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YqgQ-like 0.83 63.0 5.77e-01 83.0% 62.9%
1zmbA02 6.10.170.10 Special › Helix non-globular › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › 0.83 59.0 6.42e-01 80.9% 100.0%
2cazD00 6.10.140.820 Special › Helix non-globular › Helix Hairpins › 0.79 66.0 6.24e-01 100.0% 80.0%
2hh7A00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.79 69.0 5.72e-01 100.0% 57.6%
2rldA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.78 63.0 4.81e-01 93.6% 38.6%
3iylU02 1.10.287.1520 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.77 66.0 6.36e-01 100.0% 86.8%
4ioeA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.76 68.0 5.54e-01 100.0% 92.0%
3qxzA02 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 0.75 63.0 5.87e-01 93.6% 73.3%
7ewfA01 1.25.40.990 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.75 59.0 3.73e-01 87.2% 16.8%
3kd3A02 1.10.150.210 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Phosphoserine phosphatase; domain 2 0.71 48.0 4.54e-01 72.3% 56.7%
3zdmB00 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 0.69 51.0 5.09e-01 85.1% 80.0%
5u1xA01 1.10.287.940 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › atp-gated p2x4 ion channel 0.68 54.0 5.52e-01 91.5% 95.7%
1wa8A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.66 53.0 4.40e-01 100.0% 52.5%
2wmmA01 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 0.65 53.0 5.23e-01 89.4% 85.7%
2a8pA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.62 43.0 2.92e-01 74.5% 74.5%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3491875 4146.1.1.0 ↗ alpha bundles › YqgQ-like › YqgQ-like › YqgQ-like 0.91 74.0 6.82e-01 89.4% 71.7%
3735607 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.87 78.0 6.51e-01 100.0% 60.0%
3691750 376.1.1.8 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › U-box 0.87 78.0 5.41e-01 100.0% 32.9%
3696546 509.1.1.1 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.86 60.0 5.38e-01 78.7% 53.8%
4405271 4207.1.1.0 ↗ alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › RNA polymerase II holoenzyme component SRB7 (MED21) 0.85 76.0 5.20e-01 100.0% 32.9%
5032512 5086.1.1.234 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › CdvA 0.84 75.0 5.36e-01 100.0% 35.6%
3317228 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.83 70.0 5.65e-01 91.5% 65.9%
3333582 397.4.1.0 ↗ few secondary structure elements › Toxic hairpin › VhTI-like › VhTI-like 0.83 69.0 6.87e-01 95.7% 89.6%
3486312 192.7.1.0 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.81 69.0 5.22e-01 100.0% 40.3%
3218210 2004.1.1.184 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_11 0.80 68.0 4.19e-01 100.0% 17.5%
4971062 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.79 68.0 5.65e-01 100.0% 55.3%
3962229 2007.6.1.4 ↗ a/b three-layered sandwiches › Flavodoxin-like › Ribosomal protein S2/SIS domain › Ribosomal protein S2/SIS domain › SIS 0.78 66.0 4.27e-01 93.6% 22.0%
3988447 5043.1.1.0 ↗ extended segments › Sensor proteins transmembrane domains › Htr2 transmembrane domain-like › Htr2 transmembrane domain-like 0.77 63.0 6.02e-01 93.6% 83.6%
3837289 509.1.1.0 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain 0.76 54.0 4.86e-01 78.7% 53.8%
4637522 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 0.66 54.0 4.23e-01 100.0% 40.0%
4333013 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 0.66 54.0 4.69e-01 100.0% 57.5%