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NC_023863.2__YP_009021671.1__CHOED_05__00005

Bact-Vir

NC_023863.2__YP_009021671.1__CHOED_05__00005

Identity

Accession:
NC_023863 ↗
Kingdom:
phage

Quality

86.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_CHOED

TaxID: 1458716

Cluster

View cluster (60 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 5-54_169-226
PDB
Domain cluster: rep: NC_042020.1__YP_009613245.1__FDI47_gp21__00021__D10-50_150-206
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2va8A03 1.10.3380.30 Mainly Alpha › Orthogonal Bundle › Sec63 N-terminal domain-like fold › 0.62 48.0 3.66e-01 80.6% 99.1%
3gw4A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.61 42.0 3.38e-01 97.2% 39.1%
4yvoA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.59 40.0 3.92e-01 97.2% 63.0%
2katA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.58 38.0 3.77e-01 94.4% 63.5%
4j5tA02 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.57 46.0 2.93e-01 84.3% 49.6%
4w8kA02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.56 49.0 4.07e-01 98.1% 63.1%
1hw1A02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.56 41.0 3.71e-01 76.9% 70.2%
5iaiA02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.56 39.0 3.23e-01 74.1% 80.2%
2hfiA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.55 40.0 3.84e-01 75.9% 67.5%
1kt1A03 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.55 40.0 3.46e-01 94.4% 51.3%
2fbnA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.54 40.0 3.50e-01 93.5% 52.9%
2pkeA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.54 35.0 4.02e-01 88.9% 89.7%
7dluA01 1.10.287.1260 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.54 39.0 3.97e-01 76.9% 77.1%
8fnyA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.54 37.0 2.96e-01 95.4% 36.9%
1r8gA00 3.30.590.20 Alpha Beta › 2-Layer Sandwich › Creatine Kinase; Chain A, domain 2 › 0.54 47.0 3.36e-01 100.0% 89.8%
3mekA04 1.25.40.970 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.53 32.0 3.77e-01 88.0% 83.7%
4xhcA01 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.52 43.0 2.99e-01 86.1% 50.9%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5082459 4275.1.1.0 ↗ alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like 0.84 72.0 7.46e-01 97.2% 97.0%
4928042 4275.1.1.0 ↗ alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like 0.80 59.0 6.49e-01 75.9% 98.9%
3735475 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.63 36.0 3.60e-01 95.4% 55.5%
3690593 226.1.1.0 ↗ a+b two layers › POZ domain › POZ domain › POZ domain 0.62 43.0 4.20e-01 97.2% 64.2%
5011126 1075.1.1.4 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › ABC2_membrane_3 0.59 45.0 3.46e-01 79.6% 84.1%
3616859 532.2.1.0 ↗ alpha arrays › Type III secretion system domain-like › Type III secretion system domains › Type III secretion system domains 0.59 38.0 4.51e-01 93.5% 94.7%
3695604 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.56 46.0 3.19e-01 100.0% 29.4%
3477159 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.55 43.0 3.27e-01 100.0% 37.4%
4275525 608.1.1.1 ↗ alpha arrays › AhpD-like › AhpD-like › AhpD-like › CMD 0.54 39.0 3.21e-01 93.5% 45.0%
4951822 2005.1.1.124 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › DALR_1 0.53 47.0 3.02e-01 100.0% 93.0%
4988534 3883.1.1.1 ↗ alpha bundles › CDP-alcohol phosphotransferase helical bundle domain › CDP-alcohol phosphotransferase helical bundle domain › CDP-alcohol phosphotransferase helical bundle domain › CDP-OH_P_transf 0.52 45.0 3.85e-01 98.1% 97.8%
None — 0.51 44.0 2.80e-01 96.3% 93.4%
4141551 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.51 46.0 2.86e-01 99.1% 93.6%
4944409 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.50 44.0 3.69e-01 100.0% 57.1%
D2 high residues 58-166
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5i0dA05 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.70 50.0 4.62e-01 100.0% 58.3%
1z5hA01 2.60.40.1730 Mainly Beta › Sandwich › Immunoglobulin-like › tricorn interacting facor f3 domain 0.64 40.0 3.45e-01 99.1% 40.6%
2pmwB02 2.60.120.690 Mainly Beta › Sandwich › Jelly Rolls › Proprotein convertase subtilisin/kexin type 9 0.62 40.0 3.29e-01 100.0% 34.6%
7xc8A02 2.60.40.760 Mainly Beta › Sandwich › Immunoglobulin-like › Expansin, cellulose-binding-like domain 0.62 39.0 4.16e-01 88.1% 71.1%
3ciaA01 2.60.40.1730 Mainly Beta › Sandwich › Immunoglobulin-like › tricorn interacting facor f3 domain 0.56 42.0 3.52e-01 99.1% 46.7%
2vrqA01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.55 42.0 3.98e-01 99.1% 67.4%
5utkA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 34.0 3.82e-01 86.2% 81.9%
1fx0B01 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.54 37.0 4.18e-01 87.2% 97.5%
3h7hB00 3.30.70.940 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › NusG, N-terminal domain 0.54 33.0 3.54e-01 80.7% 70.5%
4he6A00 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.52 38.0 4.15e-01 94.5% 96.6%
4n0rA03 2.60.40.3950 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 46.0 4.62e-01 97.2% 98.2%
2fqpA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 38.0 4.01e-01 99.1% 89.5%
2q30A01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 37.0 4.02e-01 99.1% 93.2%
1ahsA00 2.60.120.170 Mainly Beta › Sandwich › Jelly Rolls › 0.50 45.0 4.36e-01 100.0% 98.4%
4lr4A01 2.60.120.1420 Mainly Beta › Sandwich › Jelly Rolls › 0.50 42.0 3.63e-01 100.0% 57.4%
2xzmP00 3.30.70.3370 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 33.0 3.04e-01 78.9% 50.0%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4958191 12.2.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Hyaluronate lyase-like, C-terminal domain › Hyaluronate lyase-like, C-terminal domain 0.68 41.0 4.00e-01 100.0% 53.2%
4360808 12.1.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.59 44.0 4.51e-01 98.2% 83.5%
3228471 11.1.1.889 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF26428 0.56 34.0 3.71e-01 82.6% 74.1%
3571554 12.5.1.1 ↗ beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5 0.56 46.0 4.07e-01 93.6% 61.9%
5026499 11.1.1.33 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arch_flagellin 0.55 49.0 3.99e-01 100.0% 81.3%
3398292 11.1.1.5 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Zona_pellucida 0.53 44.0 3.57e-01 89.0% 48.8%
5050764 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.53 40.0 3.93e-01 99.1% 74.8%
3591525 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.52 36.0 3.23e-01 71.6% 61.3%
3258662 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.52 35.0 3.17e-01 70.6% 62.6%
3486954 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 31.0 3.38e-01 86.2% 74.1%
5058841 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 39.0 3.91e-01 82.6% 87.8%
3186198 12.1.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.51 44.0 4.24e-01 95.4% 92.8%
3922431 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 39.0 3.95e-01 88.1% 83.8%
3934311 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 31.0 3.66e-01 99.1% 95.7%
5067872 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 45.0 4.02e-01 99.1% 86.5%
5034848 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 42.0 4.32e-01 99.1% 94.3%