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NC_023556.1__YP_009004716.1__CH29_gp15__00015

Bact-Vir

NC_023556.1__YP_009004716.1__CH29_gp15__00015

Identity

Accession:
NC_023556 ↗
Kingdom:
phage

Quality

93.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Jwalphavirus› Achromobacter_phage_JWAlpha

TaxID: 1416009

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 6-64
PDB
Domain cluster: rep: NC_055736.1__YP_010093527.1__KNT80_gp84__00084__D8-79
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1mswD04 1.10.287.280 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.94 89.0 7.93e-01 100.0% 87.2%
3q23A04 6.10.140.1370 Special › Helix non-globular › Helix Hairpins › 0.81 72.0 6.24e-01 100.0% 93.4%
2b0hA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.71 48.0 3.60e-01 100.0% 32.0%
3tahA02 1.10.287.1770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.63 51.0 4.60e-01 100.0% 63.6%
3ousA00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.63 53.0 4.80e-01 100.0% 69.5%
2f8lA01 1.10.150.470 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.63 52.0 4.82e-01 100.0% 72.8%
4r42A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.62 54.0 3.85e-01 100.0% 52.4%
2zgyA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.62 52.0 4.09e-01 100.0% 43.6%
1anxA04 1.10.220.10 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Annexin 0.61 43.0 4.06e-01 74.6% 93.1%
8ctsB01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.60 50.0 4.51e-01 100.0% 65.5%
3u60A03 1.10.8.700 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Bacteriophage clamp loader A subunit, A domain 0.59 47.0 4.41e-01 88.1% 95.9%
1oaiA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.57 42.0 4.24e-01 91.5% 79.7%
3cqxC00 1.20.58.890 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 48.0 4.31e-01 100.0% 66.7%
1xrhD01 1.10.1530.10 Mainly Alpha › Orthogonal Bundle › Hypothetical Oxidoreductase Yiak; Chain: A, domain 1 › Malate/L-lactate/L-sulpholactate dehydrogenase, four-helix barrel 0.56 41.0 3.54e-01 81.4% 85.4%
4h8aB01 1.10.1530.10 Mainly Alpha › Orthogonal Bundle › Hypothetical Oxidoreductase Yiak; Chain: A, domain 1 › Malate/L-lactate/L-sulpholactate dehydrogenase, four-helix barrel 0.56 38.0 3.85e-01 71.2% 76.7%
4nleA03 1.10.40.30 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › Fumarase/aspartase (C-terminal domain) 0.56 45.0 4.27e-01 94.9% 92.1%
1bi0A02 1.10.60.10 Mainly Alpha › Orthogonal Bundle › Diphtheria Toxin Repressor; domain 2 › Iron dependent repressor, metal binding and dimerisation domain 0.54 41.0 4.09e-01 91.5% 97.0%
2dzlA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.54 36.0 3.52e-01 71.2% 60.6%
3dddA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.54 42.0 3.33e-01 88.1% 61.5%
4l8jA04 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.53 44.0 4.44e-01 100.0% 89.8%
1qh5A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.53 44.0 2.95e-01 100.0% 28.5%
3fbiD00 1.10.10.1340 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Mediator of RNA polymerase II, submodule Med31 (Soh1) 0.53 38.0 3.35e-01 78.0% 78.7%
3h36A00 1.10.10.400 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain 0.53 41.0 3.77e-01 86.4% 92.3%
3gpvA00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.53 37.0 3.05e-01 74.6% 48.7%
2e6oA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.52 38.0 3.42e-01 100.0% 55.2%
ECOD (21)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3707083 4966.1.1.1 ↗ alpha arrays › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase › RNA_pol 0.95 90.0 6.43e-01 100.0% 46.0%
4588821 4966.1.1.1 ↗ alpha arrays › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase › RNA_pol 0.95 89.0 7.52e-01 100.0% 73.3%
3596110 4966.1.1.0 ↗ alpha arrays › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase 0.95 89.0 7.70e-01 100.0% 81.2%
4026155 4966.1.1.1 ↗ alpha arrays › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase › RNA_pol 0.94 89.0 7.70e-01 100.0% 82.4%
2934 4966.1.1.1 ↗ alpha arrays › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase › RNA_pol 0.94 89.0 7.85e-01 100.0% 85.0%
3987389 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.92 47.0 2.65e-01 100.0% 5.9%
4484002 4966.1.1.0 ↗ alpha arrays › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase 0.90 84.0 7.45e-01 100.0% 90.0%
3652236 4966.1.1.0 ↗ alpha arrays › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase 0.87 80.0 6.95e-01 98.3% 85.9%
4030778 632.2.1.5 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › DUF1542 0.70 38.0 3.45e-01 100.0% 38.7%
4441062 3962.1.1.3 ↗ alpha arrays › N-terminal helical domain in restriction-modification system methylation subunit-like › N-terminal helical domain in restriction-modification system methylation subunit › N-terminal helical domain in restriction-modification system methylation subunit › YtxK_like 0.65 55.0 5.00e-01 100.0% 69.4%
3502686 2484.1.1.88 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ParM_N 0.62 52.0 3.87e-01 98.3% 35.2%
4985449 5054.1.1.8 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans_2 0.62 53.0 4.78e-01 100.0% 74.1%
3963328 2006.1.1.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase 0.60 52.0 3.57e-01 100.0% 66.2%
3267461 108.1.1.99 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_5, EF-hand_6, EF-hand_7 0.58 40.0 3.24e-01 72.9% 49.6%
4980419 4953.1.1.2 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › ADSL_C 0.58 47.0 4.28e-01 94.9% 72.9%
3703727 2006.1.1.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase 0.57 48.0 3.28e-01 100.0% 39.6%
3270733 108.1.1.73 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_5+EF-hand_7 0.55 39.0 3.54e-01 78.0% 68.2%
3322005 2006.1.1.44 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase, Hydrolase_like 0.54 43.0 3.02e-01 100.0% 46.2%
5050879 101.1.2.652 ↗ alpha arrays › HTH › HTH › winged helix domain › Fe_dep_repr_C 0.54 45.0 3.60e-01 100.0% 50.4%
4980535 101.1.2.914 ↗ alpha arrays › HTH › HTH › winged helix domain › DUF6015 0.54 42.0 3.65e-01 88.1% 97.9%
3686422 621.1.1.0 ↗ alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain 0.52 38.0 3.27e-01 83.1% 58.1%
D2 high residues 79-136
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2be4A01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.66 41.0 3.68e-01 79.3% 43.2%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3652235 4964.1.1.0 ↗ alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I 0.91 84.0 5.90e-01 100.0% 42.4%
3488729 4964.1.1.2 ↗ alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › RNA_pol 0.89 82.0 5.41e-01 100.0% 32.6%
3332576 4964.1.1.2 ↗ alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › RNA_pol 0.89 82.0 5.93e-01 100.0% 53.1%
3328712 4964.1.1.0 ↗ alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I 0.87 80.0 5.19e-01 100.0% 31.7%
3195609 4964.1.1.2 ↗ alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › RNA_pol 0.87 80.0 5.29e-01 100.0% 33.3%
4189845 4964.1.1.0 ↗ alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I 0.87 79.0 5.21e-01 100.0% 40.0%
3707083 4966.1.1.1 ↗ alpha arrays › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase › inserted helical bundle subdomain in T7 RNA polymerase › RNA_pol 0.84 63.0 4.56e-01 79.3% 35.3%