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NC_055050.1__YP_010083910.1__KMD50_gp10__00010

Bact-Vir

NC_055050.1__YP_010083910.1__KMD50_gp10__00010

Identity

Accession:
NC_055050 ↗
Kingdom:
phage

Quality

86.3 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 6-103
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF26825.1 best HCP2_Skunalikevirus 181.0 9.70e-54 100.0% 87.5%
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4acvA00 3.30.2000.30 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.71 64.0 6.01e-01 100.0% 90.8%
1atiB01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.66 59.0 4.17e-01 100.0% 83.3%
2bc4A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.65 45.0 4.33e-01 75.5% 63.3%
3mf1B00 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.65 58.0 4.22e-01 100.0% 79.3%
2rjzA02 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.64 54.0 5.47e-01 100.0% 90.9%
5hl8C00 3.30.1360.100 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › General secretion pathway protein M, EpsM 0.64 46.0 4.98e-01 100.0% 92.4%
2joqA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.64 40.0 4.51e-01 79.6% 82.7%
2rhqB05 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.64 57.0 4.54e-01 100.0% 93.1%
1b8aA02 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.63 56.0 3.90e-01 100.0% 80.5%
2dt9A02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.63 40.0 4.38e-01 80.6% 79.7%
3i7fB02 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.63 56.0 3.88e-01 100.0% 74.0%
3ibwA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.63 40.0 4.31e-01 82.7% 78.5%
6vh5C03 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.62 45.0 4.67e-01 89.8% 84.3%
2e9wB05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 40.0 4.17e-01 73.5% 72.5%
3mjgX03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 41.0 4.06e-01 74.5% 68.3%
5z0uA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 45.0 4.13e-01 88.8% 62.9%
1kcvL02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 43.0 4.23e-01 75.5% 73.8%
4divV01 2.40.30.200 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.58 50.0 4.52e-01 96.9% 88.3%
3c0wA01 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.58 45.0 4.25e-01 100.0% 69.2%
4m1xD00 3.30.1360.240 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.57 40.0 4.54e-01 96.9% 100.0%
3s1tA02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.57 37.0 4.04e-01 91.8% 81.2%
3tz6A02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.57 50.0 4.08e-01 100.0% 98.5%
2dvkA00 3.30.1960.10 Alpha Beta › 2-Layer Sandwich › SSo0622-like fold › tRNA wybutosine-synthesizing-like 0.57 51.0 4.30e-01 100.0% 88.6%
4bfoA00 2.60.40.2440 Mainly Beta › Sandwich › Immunoglobulin-like › Carbohydrate binding type-21 domain 0.57 43.0 4.22e-01 79.6% 73.6%
1vq8S00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.57 39.0 4.26e-01 89.8% 86.4%
1fp5A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 39.0 3.88e-01 74.5% 74.0%
4bhqA00 3.30.70.2830 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 45.0 4.39e-01 91.8% 86.2%
4of8A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 39.0 3.86e-01 75.5% 96.1%
4u1qA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 41.0 3.33e-01 82.7% 81.8%
3aawA02 3.30.2130.10 Alpha Beta › 2-Layer Sandwich › VC0802-like › VC0802-like 0.53 43.0 3.65e-01 89.8% 69.1%
2vfrA03 3.30.70.2530 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 36.0 3.77e-01 92.9% 79.3%
3bf2A00 3.30.160.150 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Lipoprotein like domain 0.52 38.0 3.53e-01 99.0% 60.0%
3l60A01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.52 47.0 3.58e-01 99.0% 76.4%
3byqA00 3.30.1330.110 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › BB2672 0.51 41.0 3.36e-01 88.8% 87.4%
3f56A01 3.30.70.1710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › BMC (bacterial microcompartment) domain 0.51 40.0 3.95e-01 89.8% 79.2%
1kiaA01 3.30.46.10 Alpha Beta › 2-Layer Sandwich › Glycine N-methyltransferase; chain A, domain 1 › Glycine N-methyltransferase, chain A, domain 1 0.50 38.0 4.12e-01 100.0% 97.6%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5040945 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.75 68.0 5.92e-01 100.0% 90.7%
3964886 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.75 68.0 6.06e-01 100.0% 95.7%
3941902 304.124.1.7 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › Minor_capsid_3 0.75 68.0 6.29e-01 100.0% 97.6%
5083880 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.74 67.0 5.89e-01 100.0% 94.5%
3966645 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.74 67.0 6.20e-01 100.0% 96.0%
4034134 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.73 66.0 6.08e-01 100.0% 95.2%
4261744 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.72 66.0 6.07e-01 100.0% 96.8%
4928893 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.71 64.0 5.63e-01 100.0% 93.8%
5083619 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.71 64.0 5.63e-01 100.0% 93.0%
3589403 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.71 64.0 5.97e-01 99.0% 92.5%
364035 304.124.1.1 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › Phage_tail_U 0.70 61.0 5.60e-01 100.0% 93.2%
4091857 310.3.1.4 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 › GspL_C 0.70 52.0 4.73e-01 99.0% 59.2%
3266787 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.68 41.0 4.42e-01 74.5% 70.6%
4277035 310.3.1.4 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 › GspL_C 0.68 51.0 5.59e-01 100.0% 98.8%
4374003 310.3.1.0 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 0.67 57.0 5.73e-01 100.0% 91.8%
4132922 314.1.1.3 a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_2d 0.66 60.0 4.56e-01 100.0% 82.1%
3839205 310.3.1.0 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 0.66 48.0 4.54e-01 99.0% 62.5%
None 0.66 59.0 4.13e-01 100.0% 57.3%
3573614 310.3.1.18 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 › PAP_PilO 0.65 48.0 5.05e-01 100.0% 88.2%
5055862 314.1.1.3 a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_2d 0.65 58.0 4.04e-01 100.0% 77.6%
5027605 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.65 48.0 5.06e-01 100.0% 89.4%
5078308 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.64 58.0 5.23e-01 100.0% 93.3%
3742193 314.1.1.9 a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_His 0.64 58.0 3.95e-01 100.0% 87.4%
3387300 304.52.1.1 a+b two layers › Alpha-beta plaits › YbeD/HP0495-like › YbeD/HP0495-like › DUF493 0.64 38.0 4.17e-01 99.0% 71.2%
3916965 11.1.1.178 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_2 0.64 41.0 4.20e-01 86.7% 67.4%
3318862 304.8.1.45 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › bHLH-TF_ACT-like_plant 0.63 41.0 4.42e-01 76.5% 76.5%
5377 304.52.1.1 a+b two layers › Alpha-beta plaits › YbeD/HP0495-like › YbeD/HP0495-like › DUF493 0.63 40.0 4.28e-01 76.5% 73.3%
3367441 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.63 43.0 4.34e-01 82.7% 69.7%
5007485 304.165.1.4 a+b two layers › Alpha-beta plaits › Uncharacterized protein Ta1207 › Uncharacterized protein Ta1207 › HVO_2525_N 0.63 46.0 4.10e-01 100.0% 53.1%
3868654 11.1.1.99 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › V-set 0.62 42.0 3.31e-01 75.5% 33.5%
3275908 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 42.0 4.88e-01 73.5% 98.6%
3517652 601.23.1.4 alpha bundles › Four-helical up-and-down bundle › DNA repair protein MutS, domain III › DNA repair protein MutS, domain III › MutS_IV, MutS_III 0.62 45.0 3.14e-01 100.0% 23.1%
3298082 304.8.1.45 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › bHLH-TF_ACT-like_plant 0.61 41.0 4.23e-01 77.6% 72.0%
3659065 304.8.1.45 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › bHLH-TF_ACT-like_plant 0.61 44.0 4.39e-01 76.5% 73.0%
4993129 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.61 47.0 4.33e-01 98.0% 64.0%
3305653 304.8.1.45 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › bHLH-TF_ACT-like_plant 0.61 39.0 4.44e-01 77.6% 91.4%
3274259 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 46.0 4.44e-01 100.0% 70.4%
4667615 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.60 45.0 4.15e-01 78.6% 63.2%
5051463 304.54.1.0 a+b two layers › Alpha-beta plaits › CcmK-like › CcmK-like 0.60 38.0 4.14e-01 74.5% 78.8%
3905151 11.1.1.96 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C1-set 0.60 40.0 3.68e-01 86.7% 52.3%
3369744 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.59 44.0 4.17e-01 77.6% 67.0%
1933624 304.54.1.2 a+b two layers › Alpha-beta plaits › CcmK-like › CcmK-like › CsoS1D_N 0.58 42.0 4.26e-01 75.5% 77.3%
3307398 304.8.1.45 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › bHLH-TF_ACT-like_plant 0.58 43.0 4.15e-01 77.6% 69.1%
4017137 221.4.1.0 a+b two layers › beta-Grasp › Nudix › Nudix 0.57 41.0 2.94e-01 100.0% 26.1%
4888732 1.1.13.4 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Sipho_tail 0.57 49.0 4.24e-01 95.9% 77.6%
3602727 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.57 42.0 4.40e-01 100.0% 86.7%
3271075 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 0.56 50.0 4.16e-01 100.0% 72.0%
4325826 225.1.1.27 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 › PF26329 0.56 49.0 3.67e-01 99.0% 71.0%
4201044 304.109.1.10 a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e › PF27137 0.56 48.0 4.50e-01 93.9% 75.8%
4115001 242.1.1.1 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_1 0.56 40.0 3.72e-01 93.9% 57.7%
4998912 206.1.3.8 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › ATP-grasp_3 0.55 43.0 3.09e-01 82.7% 52.8%
4956426 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 41.0 4.01e-01 87.8% 71.8%
3514475 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 0.54 48.0 4.09e-01 100.0% 93.3%
5072560 2003.1.5.66 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.54 41.0 3.12e-01 80.6% 67.6%
3345132 304.8.1.45 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › bHLH-TF_ACT-like_plant 0.53 41.0 3.90e-01 82.7% 77.4%
4015844 5089.1.1.0 beta complex topology › Membrane attack complex/perforin (MACPF) and cholesterol-dependent cytolysin (CDC) domains › Membrane attack complex/perforin (MACPF) and cholesterol-dependent cytolysin (CDC) domains › Membrane attack complex/perforin (MACPF) and cholesterol-dependent cytolysin (CDC) domains 0.51 44.0 3.50e-01 100.0% 88.0%
3168063 11.1.5.7 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › Adap_comp_sub 0.51 36.0 3.12e-01 75.5% 64.1%
3667551 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.51 42.0 4.37e-01 96.9% 96.7%
4946364 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.50 40.0 3.49e-01 85.7% 98.7%