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NC_029048.2__YP_009221606.1__PHICD211_20011__00021

Bact-Vir

NC_029048.2__YP_009221606.1__PHICD211_20011__00021

Identity

Accession:
NC_029048 ↗
Kingdom:
phage

Quality

86.9 mean pLDDT

3D Structure

Domains

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

D1 high residues 38-146
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF27256.1 best YomW 75.9 5.00e-21 97.2% 74.3%
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6toaF01 3.30.2000.30 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.77 69.0 6.51e-01 100.0% 80.0%
2gjvA00 3.30.2000.10 Alpha Beta › 2-Layer Sandwich › STM4215-like › Phage tail protein-like 0.77 71.0 6.52e-01 100.0% 78.7%
3of6E00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.76 50.0 5.18e-01 86.2% 70.2%
3fz2A00 3.30.70.1700 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Phage minor tail protein U 0.75 66.0 6.29e-01 100.0% 82.0%
1dr9A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.73 45.0 4.84e-01 86.2% 71.6%
4z9cB00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.72 31.0 3.10e-01 86.2% 38.3%
2l25A00 3.30.2000.20 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.71 66.0 6.02e-01 100.0% 78.0%
2rjzA02 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.70 51.0 5.39e-01 98.2% 83.8%
6ue9L02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.69 48.0 4.65e-01 88.1% 63.9%
3d85D02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.69 45.0 4.58e-01 100.0% 67.9%
3iq2A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.68 32.0 3.12e-01 87.2% 39.0%
2vqeE01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.68 31.0 3.95e-01 86.2% 71.9%
1b7yB06 3.30.70.380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ferrodoxin-fold anticodon-binding domain 0.67 39.0 4.31e-01 70.6% 70.9%
3pcoB06 3.30.70.380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ferrodoxin-fold anticodon-binding domain 0.65 40.0 4.25e-01 70.6% 70.2%
3icaB00 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.62 57.0 4.53e-01 99.1% 89.8%
2y3uA02 3.30.980.50 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › 0.62 48.0 4.81e-01 98.2% 81.4%
2l8yA00 3.30.110.70 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Hypothetical protein apc22750. Chain B 0.62 41.0 4.23e-01 73.4% 70.5%
3onrJ00 3.30.1660.10 Alpha Beta › 2-Layer Sandwich › Dodecin subunit-like › Flavin-binding protein dodecin 0.62 36.0 4.41e-01 70.6% 92.6%
3qw9B00 2.60.40.4100 Mainly Beta › Sandwich › Immunoglobulin-like › Zona pellucida, ZP-C domain 0.61 51.0 4.41e-01 89.0% 63.9%
3pcoB05 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.60 55.0 4.43e-01 100.0% 88.0%
3byqA00 3.30.1330.110 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › BB2672 0.59 47.0 3.97e-01 86.2% 88.0%
6ofsA04 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.59 43.0 3.63e-01 97.2% 45.1%
1ie0A00 3.30.1360.80 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › S-ribosylhomocysteinase (LuxS) 0.59 46.0 4.10e-01 95.4% 58.3%
2c5dC01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 40.0 4.14e-01 100.0% 75.0%
3nrfA00 2.60.40.4110 Mainly Beta › Sandwich › Immunoglobulin-like › Protein of unknown function DUF4354 0.57 41.0 4.24e-01 86.2% 81.4%
1usyC00 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.56 49.0 3.69e-01 98.2% 91.6%
4bsjA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 45.0 4.38e-01 89.0% 77.2%
6td3B01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.56 42.0 4.33e-01 97.2% 84.5%
2nyiA02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.54 38.0 4.17e-01 73.4% 100.0%
3lvtA03 2.60.40.2210 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 40.0 3.85e-01 98.2% 69.0%
3bvxA05 2.60.40.1360 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 41.0 4.36e-01 87.2% 94.8%
4w64B00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.52 46.0 4.08e-01 100.0% 93.1%
3pfoA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 40.0 3.87e-01 90.8% 72.7%
5jtfB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 46.0 3.94e-01 100.0% 93.1%
4nasB01 3.30.70.150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RuBisCO large subunit, N-terminal domain 0.51 40.0 4.02e-01 89.9% 80.5%
1y12B00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.50 44.0 3.99e-01 99.1% 96.8%
ECOD (56)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5004177 304.124.1.3 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › DUF3168 0.81 71.0 6.73e-01 100.0% 80.8%
4928893 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.79 74.0 6.64e-01 100.0% 77.9%
4883824 304.124.1.6 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › DUF5072 0.78 66.0 6.23e-01 100.0% 76.0%
4291659 304.124.1.8 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › Phage_Mu_Gp37 0.78 73.0 6.62e-01 100.0% 81.4%
2642577 304.124.1.3 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › DUF3168 0.77 69.0 6.43e-01 100.0% 77.6%
5454 304.124.1.2 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › Gp37 0.77 71.0 6.55e-01 100.0% 79.9%
3966645 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.77 68.0 6.50e-01 98.2% 82.4%
4942348 504.1.1.0 a+b two layers › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB 0.75 36.0 3.46e-01 89.0% 40.0%
364035 304.124.1.1 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › Phage_tail_U 0.74 68.0 6.33e-01 100.0% 81.2%
5083880 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.74 67.0 6.09e-01 100.0% 79.3%
3620578 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.73 36.0 3.07e-01 88.1% 30.9%
4533171 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.72 41.0 4.22e-01 71.6% 58.1%
5054725 504.1.1.0 a+b two layers › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB 0.72 36.0 3.49e-01 89.0% 42.5%
4992631 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.72 40.0 4.41e-01 70.6% 66.7%
4453871 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.71 42.0 4.51e-01 71.6% 67.4%
4422649 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.71 41.0 4.39e-01 71.6% 66.0%
4477461 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.70 40.0 4.32e-01 71.6% 65.3%
4964003 241.1.1.29 a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone › DUF5813 0.70 54.0 4.74e-01 98.2% 56.8%
4347716 3274.1.1.1 extended segments › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › Ribosomal_S5 0.69 32.0 3.41e-01 86.2% 48.4%
3225458 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.69 36.0 3.22e-01 88.1% 35.5%
3449841 310.3.1.14 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › DUF7049 0.68 55.0 5.87e-01 88.1% 98.9%
4986421 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.68 46.0 4.72e-01 70.6% 71.4%
3218984 304.18.1.0 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS 0.68 45.0 4.39e-01 71.6% 60.8%
4084501 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.68 39.0 3.99e-01 71.6% 57.4%
3973260 310.3.1.3 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › PilN 0.67 45.0 4.28e-01 98.2% 59.2%
3959045 305.1.1.0 a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase 0.65 53.0 5.16e-01 87.2% 82.5%
3622609 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.65 40.0 3.93e-01 78.9% 58.3%
3965111 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.64 40.0 4.26e-01 73.4% 71.6%
4180852 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.64 39.0 4.11e-01 73.4% 67.3%
4945880 304.42.1.1 a+b two layers › Alpha-beta plaits › Molybdenum cofactor biosynthesis protein C, MoaC › Molybdenum cofactor biosynthesis protein C, MoaC › MoaC 0.63 44.0 4.00e-01 70.6% 59.3%
3507153 2484.1.1.39 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Fumble 0.63 44.0 3.06e-01 100.0% 22.6%
3289660 305.1.1.3 a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › DUF3000 0.63 52.0 5.11e-01 90.8% 82.5%
3959611 304.42.1.0 a+b two layers › Alpha-beta plaits › Molybdenum cofactor biosynthesis protein C, MoaC › Molybdenum cofactor biosynthesis protein C, MoaC 0.62 43.0 3.99e-01 70.6% 61.4%
4366970 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.62 39.0 4.15e-01 73.4% 71.6%
4391298 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.62 38.0 4.08e-01 73.4% 71.3%
4668692 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.61 37.0 4.00e-01 73.4% 70.2%
5013543 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.61 42.0 4.20e-01 70.6% 73.0%
4069303 304.153.1.1 a+b two layers › Alpha-beta plaits › Collagenase G catalytic helper subdomain › Collagenase G catalytic helper subdomain › ColG_sub 0.61 48.0 4.67e-01 98.2% 76.7%
4053933 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.61 42.0 4.29e-01 70.6% 94.3%
3387208 11.1.1.148 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › FixG_C 0.60 44.0 4.13e-01 87.2% 63.1%
3470249 304.42.1.0 a+b two layers › Alpha-beta plaits › Molybdenum cofactor biosynthesis protein C, MoaC › Molybdenum cofactor biosynthesis protein C, MoaC 0.59 42.0 3.88e-01 74.3% 64.8%
4274346 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.59 40.0 4.25e-01 70.6% 100.0%
3174789 314.1.1.12 a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › LplA-B_cat 0.58 53.0 4.00e-01 99.1% 74.5%
3269734 11.1.5.62 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › CBM49 0.58 47.0 4.56e-01 86.2% 94.2%
4030627 872.3.1.7 a+b two layers › Dodecin subunit-like › YbjQ-like › YbjQ-like › YbjQ_4 0.58 40.0 4.22e-01 70.6% 84.0%
3609886 304.47.1.0 a+b two layers › Alpha-beta plaits › SEA domain › SEA domain 0.58 38.0 4.00e-01 78.9% 73.0%
4021762 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.58 51.0 3.16e-01 98.2% 22.9%
3970688 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 41.0 4.26e-01 86.2% 83.0%
3784755 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.56 49.0 3.36e-01 98.2% 42.2%
4943023 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.55 45.0 4.23e-01 88.1% 81.5%
396590 11.1.1.181 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF4354 0.54 40.0 4.14e-01 89.0% 84.5%
3929879 11.12.1.1 beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD 0.54 43.0 3.75e-01 87.2% 56.7%
3636645 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.54 46.0 3.42e-01 98.2% 47.6%
5119 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.53 42.0 4.37e-01 85.3% 97.1%
3939142 206.1.1.78 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase, Kinase-like 0.53 47.0 3.21e-01 98.2% 36.0%
3806477 225.1.1.3 a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › HATPase_c 0.53 48.0 4.12e-01 100.0% 75.9%