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NC_027987.1__YP_009168333.1__LM1A4_003__00003

Bact-Vir

NC_027987.1__YP_009168333.1__LM1A4_003__00003

Identity

Accession:
NC_027987 ↗
Kingdom:
phage

Quality

93.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Unaquatrovirus› Leuconostoc_phage_1-A4

TaxID: 745088

Cluster

View cluster (11 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 179-245
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1txuA01 1.10.246.120 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.70 56.0 5.00e-01 86.6% 83.0%
2rn7A01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.68 44.0 4.47e-01 77.6% 66.7%
2ds2D01 1.10.110.10 Mainly Alpha › Orthogonal Bundle › Hydrophobic Seed Protein › Plant lipid-transfer and hydrophobic proteins 0.68 46.0 4.91e-01 71.6% 100.0%
6vudA01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.64 51.0 4.35e-01 88.1% 90.8%
2gytA01 1.10.287.2070 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.62 43.0 4.26e-01 82.1% 69.0%
1j09A05 1.10.10.350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.61 49.0 4.36e-01 95.5% 61.2%
1iurA01 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.61 46.0 4.69e-01 83.6% 100.0%
5ts9B00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.61 45.0 3.50e-01 82.1% 93.2%
4aq4A02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.60 46.0 3.21e-01 82.1% 71.3%
6axfA01 1.20.870.10 Mainly Alpha › Up-down Bundle › Son of sevenless (SoS) protein; Chain S, domain 1 › Son of sevenless (SoS) protein Chain: S domain 1 0.60 51.0 4.32e-01 98.5% 63.2%
2wsiA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.60 50.0 3.27e-01 100.0% 21.8%
1jilA01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.59 43.0 3.01e-01 79.1% 43.4%
3bemB00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.59 41.0 2.89e-01 73.1% 39.7%
1c17M00 1.20.120.220 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › ATP synthase, F0 complex, subunit A 0.58 43.0 3.47e-01 80.6% 78.9%
2c5iT00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 44.0 3.98e-01 82.1% 89.4%
2wviA00 1.25.40.430 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.58 46.0 3.58e-01 91.0% 38.1%
5dvwA00 1.20.120.1160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.56 38.0 3.13e-01 70.1% 35.6%
3edvB01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 43.0 3.47e-01 85.1% 68.4%
2go7A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.56 41.0 4.15e-01 80.6% 83.6%
4eqyA02 1.20.1180.10 Mainly Alpha › Up-down Bundle › Udp N-acetylglucosamine O-acyltransferase; Domain 2 › Udp N-acetylglucosamine O-acyltransferase, C-terminal domain 0.56 39.0 3.89e-01 77.6% 72.9%
3zdmB00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.56 38.0 4.11e-01 77.6% 96.0%
3ed5A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.55 39.0 3.67e-01 76.1% 67.9%
1irxA05 1.10.10.350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.54 45.0 4.15e-01 98.5% 69.9%
3l4aA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.54 37.0 3.11e-01 74.6% 39.7%
2cr7A01 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.53 35.0 3.63e-01 83.6% 73.0%
3ph0C00 1.25.40.1040 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.53 37.0 4.00e-01 89.6% 96.2%
4hteA03 1.10.167.30 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › 0.50 41.0 3.91e-01 92.5% 100.0%
ECOD (15)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3726887 131.1.1.0 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like 0.71 56.0 3.84e-01 85.1% 28.0%
3391605 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.64 49.0 4.96e-01 83.6% 100.0%
4311586 3579.1.1.0 ↗ extended segments › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J 0.64 47.0 3.71e-01 79.1% 91.0%
3818805 509.1.1.1 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.64 41.0 4.14e-01 85.1% 66.2%
3821280 509.1.1.0 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain 0.60 40.0 4.04e-01 82.1% 67.1%
3935030 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.58 42.0 3.72e-01 79.1% 81.0%
3824846 604.17.1.0 ↗ alpha bundles › Spectrin repeat-like › MTH_863 C-terminal domain-like › MTH_863 C-terminal domain-like 0.58 47.0 4.69e-01 97.0% 88.6%
3814902 509.1.1.1 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.57 41.0 4.02e-01 77.6% 76.0%
3915114 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.57 43.0 3.54e-01 83.6% 80.8%
3954228 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.56 39.0 3.66e-01 76.1% 88.9%
3340051 509.1.1.1 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.56 39.0 3.80e-01 77.6% 85.0%
3559937 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.55 41.0 3.59e-01 82.1% 87.6%
3810015 509.1.1.0 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain 0.53 39.0 3.76e-01 79.1% 70.7%
3602776 605.6.1.12 ↗ alpha duplicates or obligate multimers › ROP-like › HP1531-like › HP1531-like › PF27273 0.51 35.0 3.33e-01 71.6% 78.8%
3247877 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.51 39.0 3.63e-01 86.6% 63.3%
D2 medium residues 1-165
PDB
Domain cluster: rep: MK170447__AZF89918.1__X__00084__D3-182
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF09250.17 best Prim-Pol 23.6 8.90e-05 78.8% 63.9%
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1rniA01 3.30.720.160 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Bifunctional DNA primase/polymerase, N-terminal 0.73 32.0 4.87e-01 81.2% 97.1%
3muuB02 2.60.40.2400 Mainly Beta › Sandwich › Immunoglobulin-like › Alphavirus E2 glycoprotein, domain C 0.54 24.0 3.29e-01 85.5% 86.3%
3afhA02 3.90.800.10 Alpha Beta › Alpha-Beta Complex › Glutamyl-tRNA Synthetase; domain 3 › Glutamyl-tRNA Synthetase; Domain 3 0.54 30.0 3.65e-01 83.6% 84.6%
1sc6A03 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.52 27.0 3.57e-01 74.5% 96.3%
1mw7A03 3.30.70.980 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › YebC, transcriptional regulation domain 0.52 26.0 3.54e-01 83.6% 100.0%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4940784 862.1.1.3 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › Prim-Pol 0.74 65.0 6.77e-01 97.0% 98.7%
4959587 862.1.1.3 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › Prim-Pol 0.74 69.0 6.84e-01 99.4% 99.4%
7174 862.1.1.3 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › Prim-Pol 0.74 69.0 6.33e-01 100.0% 97.6%
4962598 862.1.1.0 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain 0.66 61.0 6.04e-01 98.8% 100.0%
4026759 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.56 36.0 4.29e-01 87.3% 100.0%
3216595 304.7.1.0 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.56 29.0 3.70e-01 81.2% 87.8%
4971406 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.54 28.0 3.77e-01 85.5% 98.8%
3301203 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.53 26.0 3.60e-01 82.4% 96.2%
3273984 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.52 28.0 3.73e-01 73.3% 98.8%
3220778 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.51 29.0 3.72e-01 77.6% 100.0%
3935855 304.9.1.18 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › Tap-RNA_bind 0.51 29.0 3.71e-01 84.8% 100.0%
3249128 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.51 26.0 3.30e-01 70.9% 85.6%
3937907 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.51 26.0 3.09e-01 73.3% 71.4%
3231887 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.50 26.0 3.43e-01 70.9% 97.5%