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NC_009814.1__YP_001468815.1__LiPP35_gp31__00031

Bact-Vir

NC_009814.1__YP_001468815.1__LiPP35_gp31__00031

Identity

Accession:
NC_009814 ↗
Kingdom:
phage

Quality

91.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Listeria_phage_P35

TaxID: 330398

Cluster

View cluster (4 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 medium residues 19-75
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF07083.17 best DUF1351 38.0 2.20e-09 100.0% 27.1%
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4a9aA01 6.10.140.1070 Special › Helix non-globular › Helix Hairpins › 0.78 57.0 4.58e-01 91.2% 40.5%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.74 63.0 6.19e-01 98.2% 90.3%
2mpkA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.70 49.0 4.62e-01 91.2% 59.5%
4py6C00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.69 56.0 4.37e-01 94.7% 40.9%
1tjlA00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.69 62.0 4.52e-01 98.2% 41.4%
3k2nA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.69 60.0 4.25e-01 100.0% 90.4%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.67 57.0 5.27e-01 100.0% 79.2%
5yixA00 1.10.601.10 Mainly Alpha › Orthogonal Bundle › RNA Polymerase Primary Sigma Factor › RNA Polymerase Primary Sigma Factor 0.67 57.0 3.60e-01 100.0% 66.0%
2ckoA02 3.90.1200.10 Alpha Beta › Alpha-Beta Complex › Aminoglycoside 3'-phosphotransferase; Chain: A, domain 2 › Aminoglycoside phosphotransferase (APH), C-terminal lobe 0.65 54.0 3.46e-01 93.0% 69.0%
2a26B01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.57 40.0 4.31e-01 77.2% 100.0%
3tosA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 49.0 3.26e-01 100.0% 85.3%
5y6qB02 3.30.390.50 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › CO dehydrogenase flavoprotein, C-terminal domain 0.56 43.0 3.61e-01 87.7% 100.0%
1dqeA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.54 41.0 3.21e-01 87.7% 91.2%
1bw5A00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.52 34.0 3.28e-01 71.9% 59.1%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3463809 109.1.1.55 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › PF30926 0.79 64.0 5.16e-01 96.5% 46.4%
3396399 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.78 68.0 5.38e-01 100.0% 50.8%
3626992 632.8.1.2 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › Alpha-2-MRAP_C 0.77 68.0 5.55e-01 100.0% 57.1%
4998877 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.75 65.0 4.81e-01 100.0% 38.1%
5041358 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.72 59.0 3.90e-01 94.7% 22.1%
5048976 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.72 62.0 4.67e-01 100.0% 41.4%
3887213 4229.1.1.2 ↗ alpha bundles › Indolic compounds 2,3-dioxygenase-like › Indolic compounds 2,3-dioxygenase-like › Indolic compounds 2,3-dioxygenase-like › Trp_dioxygenase 0.71 64.0 3.86e-01 100.0% 44.6%
3924041 605.1.1.212 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › 2TM_P5A-ATPase 0.69 54.0 5.27e-01 89.5% 81.5%
3896686 192.8.1.36 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › M_domain 0.68 57.0 4.86e-01 100.0% 68.0%
3228837 109.12.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › C-terminal domain of Ku80 › C-terminal domain of Ku80 0.67 48.0 4.43e-01 84.2% 58.7%
3377749 3843.1.1.15 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › ETR1_N 0.66 54.0 4.60e-01 94.7% 60.0%
3194777 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.65 56.0 4.50e-01 100.0% 49.2%
4373815 1008.1.1.96 ↗ alpha bundles › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › Spore_III_AF 0.61 51.0 4.94e-01 100.0% 95.4%
D2 medium residues 76-129
PDB
Domain cluster: representative
D3 medium residues 130-213
PDB
Domain cluster: representative
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1hqoA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.59 41.0 3.51e-01 71.4% 71.0%
3x17A02 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.57 46.0 2.89e-01 85.7% 74.7%
1nhyA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.56 40.0 3.34e-01 72.6% 62.1%
4mk3A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.56 41.0 3.65e-01 75.0% 78.3%
7xpcA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.56 46.0 3.11e-01 90.5% 45.4%
1cmjA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.56 44.0 2.85e-01 86.9% 54.6%
3wecA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.54 44.0 2.86e-01 89.3% 47.4%
2w9mA02 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.50 31.0 3.41e-01 91.7% 76.5%
4p9fA02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.50 39.0 3.27e-01 83.3% 59.7%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4025966 103.4.1.2 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › TFIIS_M 0.65 49.0 4.64e-01 79.8% 94.0%
3934477 622.1.1.0 ↗ alpha bundles › YvfG-like › HSC20 (HSCB), C-terminal oligomerisation domain › HSC20 (HSCB), C-terminal oligomerisation domain 0.59 44.0 3.96e-01 78.6% 95.7%
4931466 2484.1.1.330 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF460 0.55 47.0 3.78e-01 94.0% 83.6%
3932981 188.1.1.1 ↗ alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Hormone_recep 0.54 44.0 3.01e-01 88.1% 60.0%
3243832 188.1.1.1 ↗ alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Hormone_recep 0.51 42.0 2.90e-01 89.3% 60.0%