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NC_019519.1__YP_007006466.1__F406_gp107__00010

Bact-Vir

NC_019519.1__YP_007006466.1__F406_gp107__00010

Identity

Accession:
NC_019519 ↗
Kingdom:
phage

Quality

86.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schmittlotzvirus› Agrobacterium_phage_7-7-1

TaxID: 1161931

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 1-197
PDB
Domain cluster: rep: pre1_saliva_scaffold_4_prodigal-single.1__X__X__00023__D58-233
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF05838.18 best Glyco_hydro_108 86.4 2.10e-24 43.6% 98.8%
PF09374.16 PG_binding_3 39.6 6.80e-10 33.0% 96.0%
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6v3zA00 1.20.141.10 Mainly Alpha › Up-down Bundle › Chitosanase, subunit A; domain 1 › Chitosanase, subunit A, domain 1 0.82 65.0 6.82e-01 80.7% 99.4%
2ikbC00 1.20.141.10 Mainly Alpha › Up-down Bundle › Chitosanase, subunit A; domain 1 › Chitosanase, subunit A, domain 1 0.78 62.0 6.83e-01 88.8% 100.0%
2nr7A00 1.20.141.10 Mainly Alpha › Up-down Bundle › Chitosanase, subunit A; domain 1 › Chitosanase, subunit A, domain 1 0.69 61.0 6.15e-01 91.4% 100.0%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2756454 235.1.1.13 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Glyco_hydro_108,PG_binding_3 0.86 73.0 7.83e-01 89.3% 99.4%
7430 235.1.1.13 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Glyco_hydro_108,PG_binding_3 0.79 63.0 6.88e-01 89.3% 100.0%
5081640 235.1.1.45 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Glyco_hydro_108 0.74 65.0 6.85e-01 92.4% 100.0%
7431 235.1.1.13 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Glyco_hydro_108,PG_binding_3 0.69 60.0 6.16e-01 89.8% 100.0%
3971115 235.1.1.9 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › SLT 0.68 49.0 5.22e-01 91.9% 84.1%
D2 high residues 204-272
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4abxA02 6.10.140.1090 Special › Helix non-globular › Helix Hairpins › 0.84 78.0 7.15e-01 100.0% 79.3%
1jkvA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.82 66.0 4.70e-01 91.3% 30.5%
2qf9A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.82 62.0 4.71e-01 85.5% 35.9%
2jdiG01 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.81 66.0 6.93e-01 97.1% 100.0%
2g38B00 1.20.1260.20 Mainly Alpha › Up-down Bundle › Ferritin › PPE superfamily 0.79 71.0 5.24e-01 100.0% 42.2%
1ydxA02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.78 70.0 6.37e-01 98.6% 80.0%
2lw1A00 1.10.287.380 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain 0.78 67.0 6.28e-01 94.2% 77.6%
3lssA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.78 70.0 5.90e-01 100.0% 60.7%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.78 60.0 6.41e-01 85.5% 98.3%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.78 59.0 5.42e-01 87.0% 62.6%
4kp3C00 1.20.58.1770 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 66.0 6.29e-01 98.6% 81.5%
5b1aC01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.75 58.0 5.91e-01 97.1% 85.3%
4p9tA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.74 59.0 4.96e-01 92.8% 50.8%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.74 66.0 5.43e-01 100.0% 60.5%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.72 58.0 5.81e-01 88.4% 88.7%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.72 56.0 5.74e-01 91.3% 88.1%
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.71 58.0 6.07e-01 88.4% 100.0%
1zhcA00 6.10.280.50 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 56.0 5.45e-01 88.4% 84.2%
1zbtA01 6.10.140.1950 Special › Helix non-globular › Helix Hairpins › 0.67 52.0 4.99e-01 94.2% 72.3%
4e6nA02 6.10.140.1010 Special › Helix non-globular › Helix Hairpins › 0.65 49.0 5.06e-01 81.2% 89.4%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3959075 150.8.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE › PPE 0.81 73.0 5.43e-01 100.0% 43.5%
3400200 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.80 63.0 5.19e-01 100.0% 47.2%
3588172 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.78 62.0 4.79e-01 97.1% 39.3%
3959796 150.8.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE 0.77 70.0 5.13e-01 100.0% 42.3%
3377936 3922.1.1.173 ↗ alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › DUF3493 0.75 66.0 6.12e-01 97.1% 78.8%