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NC_054986.1__YP_010080314.1__KMC74_gp21__00021

Bact-Vir

NC_054986.1__YP_010080314.1__KMC74_gp21__00021

Identity

Accession:
NC_054986 ↗
Kingdom:
phage

Quality

65.7 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

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 6-132
PDB
Domain cluster: representative
CATH (48)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1k28D03 2.40.30.150 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Bacteriophage T4, Gp27, baseplate hub, domain 3 0.69 48.0 5.42e-01 95.3% 94.7%
4dpoB00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 34.0 3.80e-01 70.9% 63.4%
1el6A02 2.20.20.20 Mainly Beta › Single Sheet › Anthopleurin-A › Baseplate structural protein gp11, C-terminal domain 0.65 27.0 4.06e-01 75.6% 100.0%
4divV01 2.40.30.200 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.64 57.0 5.62e-01 100.0% 89.8%
2bbeA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 34.0 3.72e-01 73.2% 62.1%
1qz8A01 2.40.10.250 Mainly Beta › Beta Barrel › Thrombin, subunit H › Replicase NSP9 0.62 40.0 4.31e-01 100.0% 77.1%
5c94A00 2.40.10.250 Mainly Beta › Beta Barrel › Thrombin, subunit H › Replicase NSP9 0.62 39.0 4.07e-01 100.0% 68.1%
2ptfA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.62 53.0 5.02e-01 100.0% 78.2%
1t7vA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 34.0 3.91e-01 82.7% 73.3%
3gb0A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 38.0 4.02e-01 90.6% 69.6%
3e3pA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.61 34.0 4.27e-01 78.0% 89.7%
1fp5A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 34.0 3.82e-01 81.1% 69.0%
3io1A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 40.0 4.18e-01 91.3% 72.4%
1txkB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 38.0 4.03e-01 82.7% 69.6%
1dr9A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 33.0 3.74e-01 82.7% 69.5%
6vh5C03 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.60 34.0 3.91e-01 90.6% 76.4%
3n0vA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.60 34.0 3.95e-01 92.1% 81.0%
1cg2A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 38.0 4.04e-01 90.6% 72.7%
2rb7A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 37.0 3.97e-01 92.1% 72.0%
3nrbB01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.59 33.0 3.90e-01 91.3% 80.7%
1y12B00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.59 52.0 4.92e-01 100.0% 79.5%
3lvtA03 2.60.40.2210 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 40.0 4.04e-01 90.6% 68.2%
3kg0A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 35.0 3.89e-01 89.8% 75.3%
3bpkA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.59 55.0 4.82e-01 100.0% 72.6%
2gjvA00 3.30.2000.10 Alpha Beta › 2-Layer Sandwich › STM4215-like › Phage tail protein-like 0.59 53.0 5.20e-01 100.0% 92.6%
6toaF01 3.30.2000.30 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.58 51.0 5.12e-01 100.0% 93.8%
3tx8A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 38.0 4.04e-01 90.6% 75.4%
3o1lB01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.57 33.0 3.78e-01 92.1% 78.4%
1lp9E02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 31.0 3.66e-01 82.7% 78.8%
2f7vA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 37.0 3.97e-01 92.1% 77.8%
3fz2A00 3.30.70.1700 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Phage minor tail protein U 0.56 48.0 4.83e-01 100.0% 93.0%
3fgeA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 52.0 4.63e-01 100.0% 73.3%
4hudA01 3.30.2000.40 Alpha Beta › 2-Layer Sandwich › STM4215-like › Myoviridae tail sheath stabiliser 0.54 50.0 4.19e-01 100.0% 76.2%
3pfeA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 40.0 3.99e-01 91.3% 75.4%
3qw9B00 2.60.40.4100 Mainly Beta › Sandwich › Immunoglobulin-like › Zona pellucida, ZP-C domain 0.54 41.0 3.74e-01 81.9% 60.8%
1y0hB00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 33.0 3.68e-01 89.8% 79.6%
4nasB01 3.30.70.150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RuBisCO large subunit, N-terminal domain 0.53 37.0 3.95e-01 93.7% 82.3%
3pfoA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 40.0 3.99e-01 92.1% 78.1%
2k4qA00 4.10.410.40 Few Secondary Structures › Irregular › Factor Xa Inhibitor › 0.52 47.0 4.43e-01 100.0% 84.0%
3gz7B00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 32.0 3.52e-01 90.6% 78.6%
4y6iA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 34.0 3.67e-01 94.5% 81.6%
1vm0A00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.52 33.0 3.72e-01 90.6% 86.0%
2ek0A00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.51 35.0 4.06e-01 99.2% 98.9%
3ahpA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 34.0 3.61e-01 93.7% 78.3%
1qzzA03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 36.0 3.29e-01 100.0% 54.4%
3tf8B00 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.51 41.0 3.63e-01 96.1% 59.8%
2l8yA00 3.30.110.70 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Hypothetical protein apc22750. Chain B 0.50 33.0 3.56e-01 95.3% 79.0%
2y8yA02 3.30.70.1210 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Crispr-associated protein; domain 2 0.50 33.0 3.48e-01 72.4% 73.0%
ECOD (57)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5002750 1.1.13.0 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.73 56.0 6.07e-01 98.4% 97.1%
4319057 1.1.5.25 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.72 47.0 4.94e-01 100.0% 72.2%
3998503 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.72 36.0 4.23e-01 70.1% 67.8%
4616814 1.1.7.79 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Beta-barrel_RND 0.70 44.0 4.91e-01 92.9% 81.0%
3973637 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.69 43.0 4.76e-01 94.5% 79.0%
4059301 1.1.13.47 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Dit_like 0.66 53.0 5.67e-01 100.0% 98.2%
4033372 1.1.13.0 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.64 43.0 4.60e-01 94.5% 78.2%
1444177 1.1.13.0 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.64 57.0 5.64e-01 100.0% 90.4%
4538400 1.1.5.25 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.64 45.0 4.49e-01 100.0% 70.0%
3369437 1.1.9.5 beta barrels › cradle loop barrel › RIFT-related › PUA domain › LON_substr_bdg 0.64 44.0 3.53e-01 96.1% 36.0%
4964155 1.1.9.31 beta barrels › cradle loop barrel › RIFT-related › PUA domain › SRA_ScoMcrA 0.64 50.0 4.89e-01 98.4% 75.7%
3943681 1.1.13.47 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Dit_like 0.63 58.0 5.47e-01 100.0% 96.0%
5034162 10.20.1.0 beta sandwiches › jelly-roll › Jelly-roll domain in cysteine protease › Jelly-roll domain in cysteine protease 0.63 35.0 3.89e-01 92.9% 68.0%
3909822 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.63 46.0 4.89e-01 94.5% 87.3%
4957562 1.1.13.76 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › DUF6046 0.62 49.0 5.17e-01 100.0% 97.3%
4379611 304.102.1.6 a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › TruB_N,TruB_C_2 0.61 45.0 3.73e-01 77.2% 59.1%
3696371 1.1.5.10 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.61 57.0 4.61e-01 100.0% 60.5%
4957560 1.1.13.0 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.61 54.0 5.38e-01 100.0% 92.3%
3164699 1.1.13.33 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › DNA_circ_N 0.61 50.0 5.25e-01 100.0% 98.3%
4157825 1.1.13.0 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.61 53.0 5.30e-01 100.0% 92.3%
3917151 11.1.1.108 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C2-set_2 0.61 35.0 3.95e-01 81.9% 74.7%
3602499 1.1.5.17 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › DUF447_N 0.60 50.0 5.02e-01 100.0% 86.2%
4118093 1.1.5.17 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › DUF447_N 0.60 52.0 4.87e-01 100.0% 75.5%
4255072 304.102.1.4 a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › TruB_N 0.60 44.0 3.83e-01 76.4% 57.9%
5004177 304.124.1.3 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › DUF3168 0.60 51.0 5.19e-01 100.0% 94.4%
4214302 1.1.9.5 beta barrels › cradle loop barrel › RIFT-related › PUA domain › LON_substr_bdg 0.59 42.0 3.49e-01 93.7% 41.8%
5003885 1.1.5.24 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_T4_gp19 0.59 54.0 5.16e-01 100.0% 86.9%
4929634 1.1.5.47 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_tube_2 0.59 48.0 3.79e-01 100.0% 41.5%
3993377 319.1.1.0 beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.59 38.0 4.56e-01 89.8% 98.8%
4982153 1.1.5.0 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.59 53.0 4.17e-01 100.0% 47.4%
4030972 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.59 48.0 4.98e-01 100.0% 94.2%
3976188 1.1.13.1 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_tube 0.58 52.0 4.79e-01 100.0% 75.8%
4395919 11.1.1.66 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › MdoG 0.58 37.0 3.76e-01 82.7% 64.0%
4992907 1.1.5.17 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › DUF447_N 0.58 51.0 4.79e-01 100.0% 77.4%
3995934 389.4.1.0 few secondary structure elements › EGF-like › Fibulin-4 EGF-like 1 domain › Fibulin-4 EGF-like 1 domain 0.58 31.0 3.66e-01 100.0% 75.3%
3946057 304.102.1.1 a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 0.58 42.0 3.53e-01 77.2% 44.8%
3465961 304.102.1.6 a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › TruB_N,TruB_C_2 0.57 43.0 3.61e-01 78.0% 50.5%
4956118 304.8.1.2 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.57 32.0 3.75e-01 90.6% 78.8%
4935602 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.57 38.0 3.97e-01 90.6% 72.5%
3678624 1.1.9.4 beta barrels › cradle loop barrel › RIFT-related › PUA domain › SAD_SRA 0.57 50.0 4.14e-01 95.3% 74.5%
5039332 304.102.1.7 a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › Pus10_C 0.57 42.0 3.38e-01 78.7% 52.3%
3537229 310.3.1.21 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 › HNOB 0.57 42.0 4.58e-01 100.0% 94.3%
3339622 2003.1.5.342 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › TYW2_N_2 0.56 36.0 2.95e-01 76.4% 35.2%
4965450 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.56 35.0 3.72e-01 92.9% 70.9%
4970983 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.56 39.0 3.99e-01 91.3% 75.0%
3366397 11.1.1.14 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Glyco_hydro_2 0.56 40.0 3.99e-01 82.7% 72.3%
5027270 1.1.5.17 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › DUF447_N 0.55 51.0 4.56e-01 100.0% 73.1%
4971865 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.54 37.0 3.84e-01 91.3% 74.2%
5028112 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.54 39.0 3.91e-01 92.1% 73.8%
4968263 1.1.5.91 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › DUF447_C 0.53 49.0 4.06e-01 100.0% 61.4%
3192615 868.1.1.8 a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › SLS1_C 0.52 38.0 2.90e-01 76.4% 46.2%
4026254 2003.1.5.24 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Met_10 0.52 39.0 3.07e-01 80.3% 38.7%
5048630 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.51 38.0 3.74e-01 91.3% 71.9%
3699604 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.51 39.0 3.82e-01 90.6% 74.1%
3624277 2003.1.5.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.51 39.0 2.92e-01 81.1% 33.2%
3592320 304.25.1.0 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain 0.51 37.0 3.64e-01 91.3% 70.0%
5064481 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.50 44.0 4.20e-01 96.9% 82.0%
D2 high residues 153-283
PDB