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NC_047872.1__YP_009793649.1__QLX41_gp160__00150

Bact-Vir

NC_047872.1__YP_009793649.1__QLX41_gp160__00150

Identity

Accession:
NC_047872 ↗
Kingdom:
phage

Quality

90.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Pecentumvirus› Listeria_phage_LMTA-94

TaxID: 1486419

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 7-36
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2eqmA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.84 67.0 5.80e-01 100.0% 58.5%
2digA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.73 56.0 4.61e-01 100.0% 47.1%
2jhnA01 3.30.310.20 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › DNA-3-methyladenine glycosylase AlkA, N-terminal domain 0.72 51.0 3.52e-01 80.0% 69.9%
2eyqA05 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.70 55.0 4.57e-01 100.0% 47.5%
2vnuD02 2.40.50.700 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.70 52.0 4.18e-01 100.0% 88.3%
3ne5B01 2.40.420.20 Mainly Beta › Beta Barrel › conserved putative lor/sdh protein from methanococcus maripaludis s2 fold › 0.68 52.0 3.98e-01 100.0% 39.5%
3mlqH00 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.66 51.0 4.74e-01 100.0% 66.7%
4dnhA01 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.66 49.0 2.81e-01 90.0% 94.8%
6l4lA02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.65 49.0 3.28e-01 100.0% 19.9%
1ckmA01 3.30.470.30 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme 0.65 45.0 2.94e-01 100.0% 15.5%
2lqkA00 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.63 47.0 3.86e-01 100.0% 41.4%
4mypA00 2.60.40.1850 Mainly Beta › Sandwich › Immunoglobulin-like › 0.63 45.0 3.08e-01 80.0% 59.5%
2qggA02 2.30.30.240 Mainly Beta › Roll › SH3 type barrels. › PRC-barrel domain 0.62 44.0 3.60e-01 100.0% 94.0%
3k7uC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.62 43.0 3.40e-01 100.0% 88.8%
2cg7A01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.62 43.0 4.05e-01 100.0% 56.5%
3bxpB00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.61 42.0 2.52e-01 73.3% 37.8%
1pcfA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.60 43.0 3.77e-01 100.0% 51.5%
4c89C00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.60 47.0 2.76e-01 100.0% 18.3%
4inzA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.60 46.0 2.75e-01 100.0% 18.2%
2mc2A00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.58 47.0 2.87e-01 100.0% 14.6%
3iq2A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.58 47.0 3.19e-01 100.0% 29.3%
6euaA01 3.90.215.10 Alpha Beta › Alpha-Beta Complex › Gamma Fibrinogen; Chain A, domain 1 › Gamma Fibrinogen, chain A, domain 1 0.58 43.0 2.98e-01 100.0% 41.7%
3nvnA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 44.0 2.53e-01 100.0% 10.4%
7szeB01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.56 42.0 2.90e-01 100.0% 24.3%
4hxfB02 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.56 45.0 2.69e-01 100.0% 23.2%
1ln1A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.56 42.0 2.70e-01 100.0% 20.2%
4exrA02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 41.0 3.32e-01 100.0% 38.0%
2qzbA00 2.60.460.10 Mainly Beta › Sandwich › protein yfey like fold › protein yfey like domain 0.55 41.0 2.76e-01 100.0% 19.3%
3fnbA02 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.55 42.0 2.59e-01 100.0% 23.3%
3en9A03 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.54 40.0 3.17e-01 100.0% 37.0%
3dmgA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 41.0 2.63e-01 100.0% 45.4%
1yk9A00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.53 35.0 2.45e-01 100.0% 67.9%
5cygB00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.53 40.0 2.40e-01 100.0% 49.3%
2hb5A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.53 42.0 2.75e-01 100.0% 80.7%
6a95B00 2.30.130.120 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › 0.53 39.0 3.43e-01 96.7% 57.1%
8p2bA01 3.90.1010.20 Alpha Beta › Alpha-Beta Complex › Sufe protein. Chain: A › 0.52 40.0 3.07e-01 100.0% 35.0%
3wa7A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.52 37.0 2.14e-01 100.0% 19.3%
2wv9A01 2.40.10.120 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.52 35.0 2.40e-01 93.3% 19.8%
3ednA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.52 38.0 2.59e-01 90.0% 63.4%
1bf5A04 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.52 40.0 2.84e-01 100.0% 30.1%
2jemA00 2.60.120.180 Mainly Beta › Sandwich › Jelly Rolls › Glycoside hydrolase family 11/12, catalytic domain 0.52 40.0 2.42e-01 90.0% 25.0%
2kvtA00 3.30.730.30 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › YaiA protein 0.52 42.0 3.29e-01 100.0% 45.1%
3dtdD00 2.60.40.1880 Mainly Beta › Sandwich › Immunoglobulin-like › Invasion associated locus B (IalB) protein 0.51 36.0 2.57e-01 100.0% 22.8%
2dfkC02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 33.0 2.43e-01 96.7% 19.1%
6nqbP00 3.30.1320.10 Alpha Beta › 2-Layer Sandwich › S16 Ribosomal Protein; Chain: A; › Ribosomal protein S16 0.51 39.0 3.07e-01 100.0% 40.5%
4ku0D00 2.60.200.60 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.51 37.0 2.85e-01 100.0% 39.6%
4indA01 2.60.120.1320 Mainly Beta › Sandwich › Jelly Rolls › 0.50 34.0 2.49e-01 96.7% 68.5%
ECOD (61)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3622052 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.88 74.0 5.35e-01 100.0% 35.3%
4025326 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.86 70.0 5.44e-01 100.0% 42.9%
3275404 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.86 68.0 5.49e-01 100.0% 46.7%
3315096 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.80 64.0 6.31e-01 100.0% 91.4%
3597513 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.79 67.0 5.55e-01 100.0% 54.5%
3839369 4.1.1.32 ↗ beta barrels › SH3 › SH3 › SH3 › CarD_TRCF_RID 0.77 64.0 4.66e-01 100.0% 35.0%
4547406 4.1.1.32 ↗ beta barrels › SH3 › SH3 › SH3 › CarD_TRCF_RID 0.77 63.0 4.63e-01 100.0% 35.0%
3839042 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.75 59.0 5.29e-01 100.0% 62.2%
3607882 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.72 62.0 4.19e-01 100.0% 35.5%
3904250 6.1.1.15 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › Ins145_P3_rec 0.71 55.0 3.96e-01 100.0% 88.6%
4423306 4.1.1.32 ↗ beta barrels › SH3 › SH3 › SH3 › CarD_TRCF_RID 0.69 53.0 4.12e-01 100.0% 37.3%
3388146 1.1.7.80 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RND-MFP_C 0.69 51.0 3.88e-01 96.7% 36.4%
5078464 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.68 52.0 4.85e-01 100.0% 66.7%
1557348 4.1.1.32 ↗ beta barrels › SH3 › SH3 › SH3 › CarD_TRCF_RID 0.66 51.0 4.74e-01 100.0% 66.7%
5081878 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.66 47.0 2.66e-01 80.0% 14.4%
3368743 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.66 51.0 4.09e-01 86.7% 46.7%
4961179 802.1.1.0 ↗ a+b two layers › Hypothetical protein TM0160 › Hypothetical protein TM0160 › Hypothetical protein TM0160 0.63 48.0 4.26e-01 100.0% 56.0%
4951189 802.1.1.0 ↗ a+b two layers › Hypothetical protein TM0160 › Hypothetical protein TM0160 › Hypothetical protein TM0160 0.63 49.0 4.31e-01 100.0% 56.0%
4944756 3604.1.1.0 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain 0.62 51.0 4.21e-01 100.0% 53.3%
4929236 3604.1.1.1 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Ni_insertion 0.62 51.0 3.98e-01 100.0% 47.1%
5005640 3604.1.1.1 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Ni_insertion 0.62 50.0 4.09e-01 100.0% 49.2%
3419351 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.62 48.0 3.99e-01 100.0% 49.2%
5072187 321.1.1.7 ↗ a+b two layers › Glutamine synthetase-like › Glutamine synthetase/guanido kinase › Glutamine synthetase/guanido kinase › GCS2 0.62 50.0 2.79e-01 100.0% 7.3%
4982659 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.62 49.0 2.77e-01 100.0% 8.0%
3791017 210.2.1.1 ↗ a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain › PP2C 0.60 49.0 2.77e-01 100.0% 9.6%
3969410 1.1.1.0 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease 0.60 44.0 3.18e-01 100.0% 28.6%
4449065 2003.1.5.53 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.59 44.0 2.59e-01 100.0% 8.0%
5012485 4.6.1.0 ↗ beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain 0.59 48.0 3.74e-01 100.0% 46.7%
4978676 295.1.1.1 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PC4 0.59 45.0 3.56e-01 100.0% 42.5%
4104868 3604.1.1.1 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Ni_insertion 0.59 45.0 3.64e-01 100.0% 43.1%
4185103 3604.1.1.1 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Ni_insertion 0.58 44.0 3.71e-01 100.0% 46.7%
3929849 207.1.1.156 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › PF27094 0.58 43.0 2.65e-01 100.0% 11.9%
3294867 3459.1.1.3 ↗ beta sandwiches › Fas apoptotic inhibitory molecule › Fas apoptotic inhibitory molecule › Fas apoptotic inhibitory molecule › DUF868 0.58 44.0 3.23e-01 93.3% 87.4%
3822963 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.58 45.0 3.10e-01 100.0% 23.1%
4584323 3604.1.1.1 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Ni_insertion 0.57 43.0 3.62e-01 100.0% 46.7%
4929550 4.6.1.2 ↗ beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain › PRC 0.57 41.0 3.53e-01 100.0% 45.7%
3958768 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.57 39.0 3.27e-01 96.7% 55.0%
4117250 3604.1.1.1 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Ni_insertion 0.56 42.0 3.67e-01 100.0% 50.9%
5048974 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.56 44.0 3.18e-01 100.0% 37.3%
5002490 2004.1.1.308 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_21 0.56 40.0 2.35e-01 93.3% 10.0%
3500885 3338.1.1.10 ↗ a+b two layers › Fragilysin-3 prodomain-like › Fragilysin-3 prodomain › Fragilysin-3 prodomain › Pep_M12B_propep 0.56 42.0 3.07e-01 100.0% 68.2%
5022365 300.1.1.0 ↗ a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease 0.56 41.0 2.61e-01 100.0% 14.7%
4086202 3604.1.1.1 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Ni_insertion 0.56 41.0 3.41e-01 100.0% 43.1%
3845942 9.13.1.7 ↗ beta barrels › Lipocalins/Streptavidin › AOC barrel-like › AOC barrel-like › Pep_M12B_propep 0.56 40.0 2.99e-01 100.0% 69.7%
3866981 9.3.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Quinohemoprotein amine dehydrogenase A chain, domain 3-like › Quinohemoprotein amine dehydrogenase A chain, domain 3-like 0.55 42.0 3.21e-01 96.7% 37.1%
5027780 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.55 41.0 3.57e-01 100.0% 53.3%
3589882 4325.1.1.7 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like › Arm-DNA-bind_4 0.55 41.0 3.58e-01 86.7% 74.0%
4369577 3604.1.1.1 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Ni_insertion 0.55 40.0 3.43e-01 100.0% 46.7%
3290541 243.3.1.3 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › PepSY 0.55 43.0 3.47e-01 93.3% 43.1%
3377568 3459.1.1.3 ↗ beta sandwiches › Fas apoptotic inhibitory molecule › Fas apoptotic inhibitory molecule › Fas apoptotic inhibitory molecule › DUF868 0.54 45.0 3.31e-01 100.0% 47.1%
4947615 3604.1.1.0 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain 0.54 43.0 3.53e-01 100.0% 49.2%
5065366 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.54 42.0 2.79e-01 80.0% 30.8%
3712071 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.53 41.0 2.42e-01 100.0% 10.8%
3650158 221.4.1.0 ↗ a+b two layers › beta-Grasp › Nudix › Nudix 0.53 36.0 2.70e-01 76.7% 30.5%
3634860 316.1.1.18 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › AbiEii 0.52 38.0 2.38e-01 86.7% 23.3%
4981192 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.52 36.0 2.27e-01 93.3% 61.6%
4964555 3604.1.1.1 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Ni_insertion 0.52 39.0 3.30e-01 100.0% 50.8%
3640343 2008.1.1.79 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Pet127 0.52 37.0 2.34e-01 100.0% 32.0%
4175039 3604.1.1.1 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Ni_insertion 0.52 38.0 3.32e-01 100.0% 50.9%
3959055 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.51 38.0 3.19e-01 93.3% 56.2%
3661102 211.1.1.0 ↗ a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.50 37.0 3.26e-01 100.0% 50.9%