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NC_047732.1__YP_009782779.1__QLX46_gp146__00074

Bact-Vir

NC_047732.1__YP_009782779.1__QLX46_gp146__00074

Identity

Accession:
NC_047732 ↗
Kingdom:
phage

Quality

84.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Kayvirus› Staphylococcus_phage_IME-SA119

TaxID: 1673874

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 4-55
PDB
Domain cluster: representative
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5du9B02 3.30.559.30 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Nonribosomal peptide synthetase, condensation domain 0.68 57.0 3.77e-01 100.0% 23.0%
3py9A04 2.60.40.2560 Mainly Beta › Sandwich › Immunoglobulin-like › 0.65 44.0 3.87e-01 100.0% 47.4%
5ja2A01 3.30.559.30 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Nonribosomal peptide synthetase, condensation domain 0.62 50.0 3.26e-01 100.0% 19.2%
4mt4A00 1.20.1600.10 Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.62 51.0 3.03e-01 100.0% 88.6%
2r5rA00 3.10.270.10 Alpha Beta › Roll › Urate Oxidase › Urate Oxidase; 0.62 53.0 3.46e-01 100.0% 21.5%
3aonA00 1.10.287.3240 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 38.0 2.61e-01 71.2% 17.0%
4cvuA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 50.0 4.00e-01 100.0% 85.3%
7t4dA01 2.70.240.10 Mainly Beta › Distorted Sandwich › Leukocidin-like › Leukocidin/porin MspA 0.59 50.0 3.18e-01 100.0% 83.1%
2r7eB01 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.58 42.0 2.98e-01 100.0% 23.0%
1ffyA01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.57 43.0 2.66e-01 88.5% 48.9%
2vfrA04 3.30.70.2520 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 31.0 2.60e-01 98.1% 27.7%
3e05B00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 45.0 3.01e-01 90.4% 22.9%
7s7rA01 2.60.40.2860 Mainly Beta › Sandwich › Immunoglobulin-like › 0.56 45.0 3.52e-01 100.0% 65.7%
4ewtA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 37.0 2.92e-01 73.1% 31.3%
7b1cD01 2.10.90.10 Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines 0.54 38.0 3.41e-01 80.8% 48.9%
7by6B04 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.53 37.0 2.61e-01 100.0% 18.6%
6fdfA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 37.0 2.53e-01 94.2% 20.0%
4uqfA02 3.30.1130.10 Alpha Beta › 2-Layer Sandwich › GTP Cyclohydrolase I, domain 2 › GTP cyclohydrolase I, C-terminal domain/NADPH-dependent 7-cyano-7-deazaguanine reductase, N-terminal domain 0.52 42.0 3.19e-01 94.2% 84.3%
6xw5A01 2.40.510.10 Mainly Beta › Beta Barrel › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Positive stranded ssRNA viruses 0.52 37.0 2.62e-01 100.0% 23.1%
2byfA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 43.0 3.52e-01 100.0% 55.1%
4fvmA02 3.30.70.2820 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 40.0 3.19e-01 92.3% 42.7%
1nbwA02 3.90.470.30 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › Coenzyme B12-Dependent Enzyme linker domain 0.51 41.0 3.07e-01 92.3% 74.1%
1l3iA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 42.0 2.98e-01 100.0% 86.5%
1a3wA01 3.40.1380.20 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate Kinase; Chain: A, domain 1 › Pyruvate kinase, C-terminal domain 0.51 43.0 3.03e-01 92.3% 74.8%
3bguA01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 34.0 2.78e-01 88.5% 37.5%
2yxdA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 42.0 3.03e-01 100.0% 86.6%
1vwxB03 3.30.1430.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L3; Chain: B; domain 2, › 0.51 38.0 3.09e-01 98.1% 37.4%
1lqlA02 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.51 40.0 3.37e-01 100.0% 48.5%
3djwA00 3.30.160.300 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 42.0 3.36e-01 100.0% 48.4%
2w4yA00 2.40.160.220 Mainly Beta › Beta Barrel › Porin › 0.50 40.0 3.26e-01 100.0% 54.1%
3ttqA03 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.50 39.0 2.73e-01 100.0% 77.4%
3ks7A02 2.60.120.230 Mainly Beta › Sandwich › Jelly Rolls › 0.50 42.0 2.96e-01 96.2% 64.2%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4827615 323.1.1.5 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Condensation 0.72 61.0 4.52e-01 100.0% 37.3%
3266784 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.70 59.0 4.52e-01 98.1% 93.6%
3551688 59.1.1.7 ↗ beta complex topology › triple barrel › triple barrel › Rap30/74 interaction domains-like › Tau95_N 0.68 55.0 4.23e-01 86.5% 81.7%
4021913 109.3.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank 0.67 56.0 3.24e-01 100.0% 9.8%
4240255 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.65 53.0 4.25e-01 98.1% 46.1%
4377480 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.64 52.0 3.48e-01 98.1% 58.0%
5072529 512.1.1.1 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st 0.64 48.0 4.11e-01 84.6% 52.2%
5035417 3010.1.1.0 ↗ a/b three-layered sandwiches › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains 0.63 49.0 4.12e-01 88.5% 65.3%
3367010 2004.1.1.26 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin 0.63 56.0 3.86e-01 100.0% 32.0%
4484391 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.63 51.0 4.05e-01 100.0% 42.4%
4983910 319.1.1.1 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › HSP20 0.63 48.0 3.69e-01 100.0% 34.6%
4629438 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.62 50.0 4.10e-01 96.2% 46.4%
4120121 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.61 49.0 4.02e-01 96.2% 46.4%
5075588 512.1.1.0 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) 0.61 45.0 3.82e-01 80.8% 48.9%
4119784 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.60 49.0 3.90e-01 100.0% 42.7%
4944561 512.1.1.0 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) 0.60 50.0 4.19e-01 100.0% 97.0%
5056319 177.1.1.0 ↗ alpha bundles › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease 0.60 50.0 3.55e-01 100.0% 90.3%
2997715 11.13.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Leukocidin-like › Leukocidin-like › Leukocidin 0.60 52.0 3.28e-01 100.0% 82.1%
3190012 883.1.1.12 ↗ a+b complex topology › Aha1/BPI domain-like › Aha1/BPI domain-like › Aha1/BPI domain-like › DUF5923 0.60 41.0 2.75e-01 73.1% 34.2%
4354607 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.59 48.0 3.89e-01 100.0% 45.8%
4488222 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.59 48.0 3.80e-01 100.0% 41.5%
3717787 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.59 43.0 2.58e-01 78.8% 39.5%
4946616 512.1.1.2 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd 0.59 48.0 4.14e-01 96.2% 56.7%
4985264 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.59 48.0 3.72e-01 100.0% 40.0%
None — 0.59 45.0 3.13e-01 90.4% 23.8%
None — 0.59 45.0 3.12e-01 90.4% 23.8%
4196358 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.58 47.0 3.82e-01 100.0% 44.2%
4847872 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.58 49.0 3.89e-01 100.0% 45.7%
3943722 5085.1.1.1 ↗ a+b duplicates or obligate multimers › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › OEP 0.58 45.0 2.75e-01 96.2% 90.7%
3255418 2011.1.1.8 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases › Peptidase_M28 0.57 48.0 2.93e-01 98.1% 81.3%
3484074 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.57 40.0 2.96e-01 75.0% 27.9%
4101594 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.57 47.0 3.74e-01 100.0% 45.8%
4474711 3747.1.1.2 ↗ a+b two layers › Flagellar hook protein FlgE D0 domain › Flagellar hook protein FlgE D0 domain › Flagellar hook protein FlgE D0 domain › Flg_bb_rod,Flg_bbr_C 0.57 40.0 3.32e-01 78.8% 38.1%
4586646 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.56 48.0 3.75e-01 100.0% 43.2%
973647 11.13.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Leukocidin-like › Leukocidin-like › Leukocidin 0.56 44.0 3.01e-01 96.2% 87.0%
4862327 304.44.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 0.56 37.0 3.31e-01 71.2% 43.2%
3633198 67.1.1.0 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain 0.56 38.0 3.32e-01 76.9% 42.2%
3496677 3315.1.1.1 ↗ a+b complex topology › Insertion domain in O-GlcNAc transferase › Insertion domain in O-GlcNAc transferase › Insertion domain in O-GlcNAc transferase › Glyco_transf_41 0.55 47.0 3.72e-01 100.0% 55.7%
4089814 327.13.1.2 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif I in type III secretion system › Ring-building motif I in type III secretion system › YscJ_FliF_C 0.55 38.0 2.82e-01 73.1% 82.3%
4187457 4967.1.1.6 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › Intron_maturas2 0.55 35.0 2.66e-01 88.5% 23.8%
5071965 512.1.1.1 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st 0.55 44.0 3.80e-01 100.0% 60.0%
4093339 5085.1.1.1 ↗ a+b duplicates or obligate multimers › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › OEP 0.55 42.0 2.58e-01 92.3% 88.5%
4029363 304.20.1.2 ↗ a+b two layers › Alpha-beta plaits › PAP/Archaeal CCA-adding enzyme, C-terminal domain › PAP/Archaeal CCA-adding enzyme, C-terminal domain › Nrap_D3 0.55 44.0 3.25e-01 96.2% 32.5%
4989866 205.1.1.17 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Fer4_11 0.54 40.0 2.62e-01 80.8% 18.6%
3282895 912.1.1.0 ↗ few secondary structure elements › HIV-1 VPU cytoplasmic domain › HIV-1 VPU cytoplasmic domain › HIV-1 VPU cytoplasmic domain 0.53 45.0 3.15e-01 100.0% 31.3%
4236774 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.52 40.0 3.33e-01 100.0% 44.8%
3600905 67.1.1.1 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › DnaJ_C 0.52 39.0 3.44e-01 96.2% 51.1%
5073695 512.1.1.1 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st 0.52 41.0 3.54e-01 100.0% 53.0%
4583759 3382.1.1.1 ↗ alpha arrays › Protein Wnt-8 › Protein Wnt-8 › Protein Wnt-8 › wnt 0.52 38.0 2.38e-01 78.8% 70.6%
9346 2003.1.5.179 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PF30636 0.51 42.0 2.97e-01 100.0% 86.0%
3773060 2006.1.6.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA 0.51 41.0 2.69e-01 100.0% 20.4%
4544858 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.51 38.0 2.21e-01 80.8% 16.2%
4351239 4967.1.1.6 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › Intron_maturas2 0.51 37.0 2.89e-01 86.5% 31.5%
4012767 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.50 43.0 2.67e-01 100.0% 16.5%
4260992 2003.1.5.179 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PF30636 0.50 39.0 2.69e-01 86.5% 41.1%