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NC_042116.1__YP_009623729.1__FDJ41_gp119__00119

Bact-Vir

NC_042116.1__YP_009623729.1__FDJ41_gp119__00119

Identity

Accession:
NC_042116 ↗
Kingdom:
phage

Quality

89.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Eneladusvirus› Yersinia_phage_fHe-Yen9-04

TaxID: 2052742

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 5-48
PDB
Domain cluster: representative
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.77 53.0 4.22e-01 100.0% 35.9%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.69 48.0 3.82e-01 100.0% 35.1%
3gb0A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.67 57.0 4.32e-01 100.0% 77.7%
4pxeA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 56.0 4.14e-01 100.0% 78.6%
1cg2A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 53.0 4.08e-01 100.0% 80.0%
4ewtA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 53.0 4.01e-01 100.0% 79.1%
4pxdA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 54.0 4.02e-01 100.0% 80.0%
8c46A01 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 53.0 4.00e-01 100.0% 79.8%
2v8hA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 53.0 3.95e-01 100.0% 77.6%
1tzfA00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.62 43.0 2.71e-01 75.0% 86.5%
3n5fA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 52.0 3.93e-01 100.0% 79.8%
5jenA01 3.30.565.40 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Fervidobacterium nodosum Rt17-B1 like 0.60 46.0 3.60e-01 97.7% 36.9%
3cxjA00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.59 46.0 3.44e-01 100.0% 85.4%
4ga6A04 3.90.1170.30 Alpha Beta › Alpha-Beta Complex › Aldehyde Oxidoreductase; domain 3 › Pyrimidine nucleoside phosphorylase-like, C-terminal domain 0.59 52.0 4.26e-01 100.0% 90.1%
1rtzA00 3.30.70.560 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 7,8-Dihydro-6-hydroxymethylpterin-pyrophosphokinase HPPK 0.58 44.0 3.29e-01 100.0% 59.2%
6w08A01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.58 45.0 2.77e-01 100.0% 11.8%
3lp8A04 3.90.600.10 Alpha Beta › Alpha-Beta Complex › Glycinamide Ribonucleotide Synthetase; Chain A, domain 4 › Phosphoribosylglycinamide synthetase, C-terminal domain 0.57 48.0 3.86e-01 100.0% 81.7%
2mcfA00 3.40.50.11630 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 46.0 3.32e-01 97.7% 76.4%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.57 48.0 3.28e-01 100.0% 36.5%
6wubf01 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.56 46.0 3.75e-01 100.0% 81.9%
2f7vA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 48.0 3.66e-01 100.0% 84.3%
3pfoA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 44.0 3.40e-01 100.0% 82.0%
1yb3A00 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.55 45.0 3.14e-01 100.0% 50.9%
7rsfA01 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 42.0 3.33e-01 100.0% 83.5%
5uejA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 45.0 3.45e-01 100.0% 82.5%
4y6iA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 42.0 3.44e-01 100.0% 68.9%
4lm6A00 3.90.510.10 Alpha Beta › Alpha-Beta Complex › Cryptophytan Phycoerythrin (Alpha-1 Chain); Chain A › Phycoerythrin alpha chain 0.53 38.0 3.47e-01 79.5% 62.9%
1e3hA03 3.30.230.70 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › GHMP Kinase, N-terminal domain 0.53 38.0 2.61e-01 86.4% 57.3%
6qdwt00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.53 36.0 3.11e-01 81.8% 71.0%
3ijlA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.52 38.0 3.01e-01 100.0% 34.3%
3maeA00 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.52 41.0 2.73e-01 100.0% 80.8%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.52 39.0 2.63e-01 97.7% 50.2%
2ba1D01 3.30.230.70 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › GHMP Kinase, N-terminal domain 0.52 41.0 2.69e-01 95.5% 29.1%
7vbnL01 3.30.160.190 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › atu1810 like domain 0.52 43.0 3.48e-01 100.0% 49.5%
4g3wA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.52 37.0 2.83e-01 100.0% 27.7%
2d4rA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.52 39.0 2.95e-01 97.7% 30.1%
2qswA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.52 43.0 3.51e-01 100.0% 73.3%
2rb7A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 42.0 3.32e-01 100.0% 86.0%
3bjsA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.51 38.0 3.07e-01 97.7% 94.0%
2vxaA00 3.30.1660.10 Alpha Beta › 2-Layer Sandwich › Dodecin subunit-like › Flavin-binding protein dodecin 0.51 34.0 3.17e-01 72.7% 97.0%
5jp0A03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 39.0 2.99e-01 100.0% 33.1%
2gdqA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.50 36.0 2.88e-01 100.0% 34.6%
6toaE01 2.40.10.270 Mainly Beta › Beta Barrel › Thrombin, subunit H › Bacteriophage SPP1 head-tail adaptor protein 0.50 37.0 3.06e-01 88.6% 51.0%
1nh2D02 2.30.18.10 Mainly Beta › Roll › TATA box binding Protein, subunit D; domain 2 › Transcription factor IIA (TFIIA), beta-barrel domain 0.50 35.0 3.41e-01 81.8% 66.7%
2l7eA00 2.60.40.1970 Mainly Beta › Sandwich › Immunoglobulin-like › YEATS domain 0.50 39.0 2.97e-01 93.2% 46.3%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2981912 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.63 54.0 4.04e-01 100.0% 79.1%
3824144 2011.1.1.0 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases 0.62 53.0 3.97e-01 100.0% 76.7%
3196674 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.62 53.0 3.92e-01 100.0% 75.0%
3786853 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.61 52.0 3.88e-01 100.0% 75.0%
3621823 12.1.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.61 45.0 3.98e-01 90.9% 52.9%
4588120 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.61 51.0 3.83e-01 95.5% 80.9%
4561918 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.60 49.0 3.73e-01 93.2% 80.0%
3355031 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.59 49.0 3.54e-01 97.7% 66.7%
3517801 11.1.7.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › PEBP-like 0.59 43.0 2.81e-01 100.0% 16.0%
3656346 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 42.0 3.57e-01 100.0% 42.0%
4185962 2484.1.1.122 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF2209 0.58 48.0 3.54e-01 100.0% 33.6%
4981531 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.57 38.0 2.90e-01 75.0% 91.9%
3255548 327.11.2.24 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_12 0.57 46.0 3.82e-01 93.2% 88.7%
4634110 221.1.1.205 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › tRNA-Thr_ED 0.56 39.0 3.67e-01 97.7% 60.0%
3219752 5001.1.1.41 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw 0.56 43.0 2.68e-01 100.0% 30.7%
4387576 304.5.1.1 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › P-II 0.55 44.0 3.53e-01 100.0% 70.5%
3810819 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.55 45.0 2.64e-01 100.0% 13.3%
3982740 5086.1.1.190 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › OEP 0.55 38.0 2.61e-01 77.3% 18.0%
4929266 872.1.1.2 ↗ a+b two layers › Dodecin subunit-like › Flavin-binding protein dodecin-like › Flavin-binding protein dodecin-like › Dodecin 0.55 38.0 3.41e-01 75.0% 91.4%
2093009 304.12.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.55 43.0 3.57e-01 100.0% 82.3%
2659003 265.1.1.1 ↗ a+b two layers › RNA bacteriophage capsid protein › RNA bacteriophage capsid protein › RNA bacteriophage capsid protein › Levi_coat 0.54 46.0 3.33e-01 100.0% 43.1%
3672602 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 38.0 3.38e-01 100.0% 46.3%
3287371 304.25.1.0 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain 0.54 41.0 3.27e-01 97.7% 81.7%
215919 2484.1.1.19 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_1,Tnp_DNA_bind 0.54 44.0 2.57e-01 100.0% 13.5%
4229727 304.12.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.54 41.0 3.11e-01 100.0% 55.0%
5038746 872.1.1.2 ↗ a+b two layers › Dodecin subunit-like › Flavin-binding protein dodecin-like › Flavin-binding protein dodecin-like › Dodecin 0.53 37.0 3.33e-01 75.0% 91.4%
5071539 872.1.1.0 ↗ a+b two layers › Dodecin subunit-like › Flavin-binding protein dodecin-like › Flavin-binding protein dodecin-like 0.53 37.0 3.31e-01 75.0% 91.4%
5055700 872.1.1.2 ↗ a+b two layers › Dodecin subunit-like › Flavin-binding protein dodecin-like › Flavin-binding protein dodecin-like › Dodecin 0.53 37.0 3.38e-01 81.8% 95.7%
3386907 7516.1.1.1 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › NTP_transferase 0.52 39.0 2.51e-01 84.1% 43.6%
4940122 304.5.1.3 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › CutA1 0.52 40.0 3.34e-01 97.7% 70.7%
5065205 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.52 40.0 3.04e-01 95.5% 86.4%
2663914 265.1.1.1 ↗ a+b two layers › RNA bacteriophage capsid protein › RNA bacteriophage capsid protein › RNA bacteriophage capsid protein › Levi_coat 0.52 40.0 3.18e-01 100.0% 49.6%
3575578 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.51 40.0 3.65e-01 100.0% 64.6%
3587593 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.51 41.0 3.53e-01 100.0% 88.7%
3709329 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.51 41.0 3.17e-01 100.0% 69.6%
4962024 298.1.1.24 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › GFO_IDH_MocA_C3 0.50 36.0 2.48e-01 88.6% 19.5%
3174838 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.50 40.0 2.96e-01 100.0% 49.7%