←Back to structures

NC_062745.1__YP_010356657.1__M1M23_gp44__00044

Bact-Vir

NC_062745.1__YP_010356657.1__M1M23_gp44__00044

Identity

Accession:
NC_062745 ↗
Kingdom:
phage

Quality

84.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Forsetiviridae› Freyavirus› Polaribacter_phage_Danklef_1

TaxID: 2745646

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 1-126
PDB
Domain cluster: representative
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4f55A01 1.10.10.2520 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Cell wall hydrolase SleB, domain 1 0.61 29.0 3.61e-01 77.0% 71.2%
5d18A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.60 53.0 4.59e-01 97.6% 75.7%
2oerA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.57 46.0 4.10e-01 86.5% 73.7%
1orqC01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.55 36.0 3.01e-01 95.2% 38.5%
1vi0A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 43.0 4.17e-01 88.9% 95.9%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.52 31.0 3.91e-01 83.3% 100.0%
1jt6A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.52 41.0 4.04e-01 84.9% 97.1%
1r9dA01 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.52 40.0 2.49e-01 81.7% 71.6%
4by6A01 1.25.40.790 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.51 38.0 2.95e-01 77.0% 35.7%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4607154 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.65 35.0 3.49e-01 85.7% 48.1%
3462175 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.55 39.0 3.95e-01 74.6% 87.7%
3787066 1065.1.1.1 ↗ alpha bundles › SPX domain › SPX domain › SPX domain › SPX 0.54 43.0 3.58e-01 87.3% 62.9%
5077213 1075.1.2.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.54 41.0 3.70e-01 80.2% 89.1%
3693384 5000.4.1.0 ↗ alpha arrays › Toxins' membrane translocation domains › delta-Endotoxin (insectocide), N-terminal domain › delta-Endotoxin (insectocide), N-terminal domain 0.51 40.0 3.57e-01 84.1% 73.0%
3415493 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 38.0 3.95e-01 80.2% 97.5%
3717168 7015.1.1.0 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.50 40.0 3.54e-01 85.7% 88.4%
D2 high residues 189-235
PDB
Domain cluster: representative
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2mtqA00 1.20.58.130 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 53.0 4.64e-01 85.1% 79.5%
2zfuA01 1.10.10.2150 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Ribosomal RNA-processing protein 8, N-terminal domain 0.68 51.0 5.00e-01 91.5% 76.5%
2oyyA00 6.10.80.10 Special › Helix non-globular › DNA polymerase; domain 1 › Hexameric tyrosine-coordinated heme protein (HTHP) 0.67 48.0 4.26e-01 78.7% 54.9%
3tjtA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.58 46.0 4.07e-01 89.4% 67.6%
2og9A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.58 46.0 3.59e-01 100.0% 42.3%
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 37.0 3.56e-01 72.3% 62.9%
1hdlA00 3.30.60.30 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.54 42.0 4.17e-01 100.0% 89.1%
2va8A04 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.53 40.0 3.87e-01 89.4% 83.9%
2zm5A02 1.10.20.140 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › 0.52 41.0 3.68e-01 91.5% 62.5%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4471318 3455.1.1.0 ↗ alpha arrays › WY-domain in RXLR effectors › WY-domain in RXLR effectors › WY-domain in RXLR effectors 0.76 60.0 4.92e-01 89.4% 48.9%
3603296 242.1.1.7 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.74 55.0 3.64e-01 80.9% 41.6%
2439658 3455.1.1.0 ↗ alpha arrays › WY-domain in RXLR effectors › WY-domain in RXLR effectors › WY-domain in RXLR effectors 0.72 54.0 5.38e-01 80.9% 83.7%
3496953 4030.1.1.0 ↗ alpha bundles › alpha-helical domain in subunits of heterodimeric actin filament capping protein Capz › alpha-helical domain in subunits of heterodimeric actin filament capping protein Capz › alpha-helical domain in subunits of heterodimeric actin filament capping protein Capz 0.69 56.0 5.22e-01 91.5% 73.3%
2442368 3455.1.1.0 ↗ alpha arrays › WY-domain in RXLR effectors › WY-domain in RXLR effectors › WY-domain in RXLR effectors 0.68 56.0 5.62e-01 95.7% 93.6%
4650016 3949.1.1.1 ↗ alpha arrays › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › IPPT 0.65 48.0 4.39e-01 83.0% 89.2%
5000370 7000.1.1.0 ↗ alpha arrays › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS 0.63 52.0 4.86e-01 95.7% 93.3%
3830626 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.58 47.0 4.45e-01 100.0% 85.7%
5032198 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.55 39.0 3.71e-01 74.5% 78.2%