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NC_055841.1__YP_010107281.1__KNU99_gp139__00139

Bact-Vir

NC_055841.1__YP_010107281.1__KNU99_gp139__00139

Identity

Accession:
NC_055841 ↗
Kingdom:
phage

Quality

74.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pootjesviridae› Heverleevirus› Agrobacterium_phage_OLIVR5

TaxID: 2723773

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 medium residues 1-65
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1m62A00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.71 51.0 4.68e-01 76.9% 65.5%
3l1nA01 6.10.140.790 Special › Helix non-globular › Helix Hairpins › 0.66 46.0 5.04e-01 73.8% 96.1%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.65 49.0 5.13e-01 98.5% 89.8%
2i7uA00 6.10.250.1010 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.65 45.0 4.65e-01 73.8% 82.3%
7miqA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.64 46.0 3.90e-01 76.9% 49.1%
6t0bc01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.64 43.0 4.09e-01 70.8% 66.7%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.62 45.0 4.28e-01 76.9% 67.5%
7nc3F01 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.61 44.0 3.72e-01 76.9% 49.1%
2yevA02 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 44.0 4.28e-01 89.2% 67.6%
2fsfB04 1.10.3060.10 Mainly Alpha › Orthogonal Bundle › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA 0.60 50.0 3.54e-01 93.8% 67.5%
2pusA04 6.10.140.300 Special › Helix non-globular › Helix Hairpins › 0.59 41.0 3.56e-01 73.8% 44.4%
4o5fA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.59 44.0 3.51e-01 80.0% 56.7%
1hqoA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.57 45.0 3.70e-01 98.5% 44.3%
3i2fA02 1.10.3020.10 Mainly Alpha › Orthogonal Bundle › alpha-amino acid ester hydrolase ( Helical cap domain) › alpha-amino acid ester hydrolase ( Helical cap domain) 0.57 43.0 3.86e-01 98.5% 55.8%
4hz4A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.52 39.0 3.37e-01 93.8% 50.0%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4239367 4274.1.1.3 ↗ extended segments › Transmembrane helices in MalF N-terminal region › Transmembrane helices in MalF N-terminal region › Transmembrane helices in MalF N-terminal region › TMEM218_N 0.78 54.0 5.76e-01 72.3% 92.7%
3712863 140.1.1.0 ↗ alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.77 52.0 3.99e-01 70.8% 33.1%
3564234 4970.1.1.16 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › TMEM218_N 0.77 53.0 5.70e-01 72.3% 92.7%
3835982 181.1.1.1 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N 0.66 46.0 4.08e-01 96.9% 50.5%
3392896 1128.1.1.1 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.66 44.0 4.12e-01 70.8% 54.1%
3575304 102.1.1.0 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like 0.66 45.0 3.90e-01 70.8% 60.2%
4964072 192.29.1.309 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › DUF7547 0.62 43.0 3.81e-01 72.3% 53.7%
3596054 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.61 45.0 2.87e-01 81.5% 15.2%
3750381 109.4.1.46 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › IBN_N 0.58 44.0 2.88e-01 81.5% 60.0%
4025752 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.56 48.0 3.12e-01 98.5% 84.7%
3180179 148.1.1.15 ↗ alpha arrays › Histone-like › Histone-related › Histone › CENP-X 0.56 39.0 3.71e-01 70.8% 64.0%
4941041 5059.1.1.1 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA 0.55 47.0 3.14e-01 100.0% 82.4%
3998193 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.55 37.0 3.21e-01 72.3% 66.4%
3613191 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 42.0 2.76e-01 83.1% 61.1%
4987688 3684.1.1.0 ↗ alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.54 47.0 3.73e-01 100.0% 52.9%
3401272 174.1.1.29 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › DUF4728 0.53 43.0 3.40e-01 100.0% 45.9%
5024245 3291.1.1.0 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.51 40.0 3.49e-01 90.8% 73.6%