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NC_055034.1__YP_010082775.1__KMD23_gp67__00067

Bact-Vir

NC_055034.1__YP_010082775.1__KMD23_gp67__00067

Identity

Accession:
NC_055034 ↗
Kingdom:
phage

Quality

71.9 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.

D2 medium residues 34-82
PDB
Domain cluster: representative
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3e0vB01 3.40.1380.20 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate Kinase; Chain: A, domain 1 › Pyruvate kinase, C-terminal domain 0.68 56.0 3.95e-01 93.9% 67.7%
3fk5A02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.67 54.0 4.02e-01 93.9% 55.7%
4hlbA00 3.30.70.2960 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.67 53.0 4.39e-01 91.8% 72.6%
2okcA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.64 46.0 2.83e-01 81.6% 12.4%
2xi5A00 3.40.91.60 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.64 52.0 3.53e-01 93.9% 35.3%
2znrA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.64 53.0 3.72e-01 100.0% 70.2%
3g7kA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.63 54.0 3.70e-01 100.0% 48.7%
5swcD00 3.40.1050.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase 0.63 52.0 3.52e-01 100.0% 80.6%
3il4A02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.63 49.0 3.67e-01 93.9% 53.4%
2x3eA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.62 49.0 3.64e-01 95.9% 50.6%
4oa3A00 3.10.310.50 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.61 49.0 3.67e-01 95.9% 38.3%
2pvzB01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.61 52.0 3.52e-01 100.0% 46.6%
1s14B00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.60 49.0 3.51e-01 100.0% 33.7%
5anpA00 3.10.310.50 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.60 49.0 3.65e-01 100.0% 62.8%
2f7lA02 3.40.120.10 Alpha Beta › 3-Layer(aba) Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 3 › Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3 0.58 47.0 3.68e-01 98.0% 64.8%
1f1uA02 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.58 49.0 3.45e-01 95.9% 52.8%
1tuoA02 3.40.120.10 Alpha Beta › 3-Layer(aba) Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 3 › Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3 0.57 46.0 4.01e-01 98.0% 96.5%
8d3mI01 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.57 48.0 3.25e-01 100.0% 37.2%
3q9oA03 3.90.175.10 Alpha Beta › Alpha-Beta Complex › Diphtheria Toxin; domain 1 › Diphtheria Toxin, domain 1 0.57 44.0 3.03e-01 93.9% 21.9%
1bwzA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.57 46.0 3.54e-01 98.0% 50.4%
1dhrA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.56 44.0 2.88e-01 87.8% 44.9%
1sjiA03 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 41.0 3.16e-01 81.6% 34.7%
3umoA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.56 46.0 2.91e-01 100.0% 17.8%
2ph7A02 3.40.50.10670 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › af2093 domain 0.56 47.0 3.88e-01 100.0% 60.4%
4hu8A02 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.56 45.0 2.77e-01 98.0% 35.8%
3cwvA01 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.56 44.0 3.07e-01 95.9% 77.3%
1aj6A00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.56 44.0 3.05e-01 89.8% 66.5%
2f20A00 3.90.1680.10 Alpha Beta › Alpha-Beta Complex › hypothetical protein yedk fold › SOS response associated peptidase-like 0.55 42.0 2.83e-01 93.9% 39.5%
7mi4A01 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.55 47.0 3.23e-01 100.0% 44.1%
4ebrA00 3.30.1460.50 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.54 42.0 3.05e-01 89.8% 45.2%
2w3qA02 3.40.1050.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase 0.53 42.0 3.12e-01 100.0% 66.5%
5o6uB00 3.30.70.2540 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › CRISPR-associated endoribonuclease Cas6/Csy4 0.53 45.0 3.11e-01 100.0% 83.0%
2ot9A01 3.10.640.10 Alpha Beta › Roll › Restriction endonuclease-like alpha-beta roll fold › Restriction endonuclease-like alpha-beta roll domain 0.53 42.0 2.96e-01 93.9% 42.0%
1yavB00 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.53 43.0 3.18e-01 100.0% 33.3%
3k3pA01 3.40.50.20 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.52 41.0 3.39e-01 100.0% 52.3%
2diqA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.52 37.0 2.99e-01 77.6% 83.0%
1tk7A01 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.51 30.0 3.29e-01 91.8% 70.3%
4csqA00 2.30.29.190 Mainly Beta › Roll › PH-domain like › 0.51 40.0 3.07e-01 85.7% 41.6%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2495545 207.2.1.22 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like › Beta_helix 0.74 54.0 3.08e-01 100.0% 8.4%
3989407 3585.1.1.0 a+b two layers › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain 0.73 56.0 5.15e-01 93.9% 64.6%
4419934 4126.1.1.6 a/b three-layered sandwiches › beta-carbonic anhydrase-like › beta-carbonic anhydrase › beta-carbonic anhydrase › DabA 0.71 60.0 3.93e-01 100.0% 69.3%
4611006 3585.1.1.0 a+b two layers › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain 0.71 54.0 4.90e-01 93.9% 60.9%
1517806 7518.1.1.1 a/b three-layered sandwiches › PK C-terminal domain-like › PK C-terminal domain-like › PK C-terminal domain-like › PK_C 0.71 60.0 4.48e-01 98.0% 73.2%
4522026 3585.1.1.0 a+b two layers › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain 0.70 53.0 4.91e-01 93.9% 64.6%
4935703 3688.1.1.1 a+b two layers › N-terminal subdomain in UbiD middle domain › N-terminal subdomain in UbiD middle domain › N-terminal subdomain in UbiD middle domain › UbiD_N 0.69 52.0 4.58e-01 95.9% 54.7%
5083419 7518.1.1.0 a/b three-layered sandwiches › PK C-terminal domain-like › PK C-terminal domain-like › PK C-terminal domain-like 0.68 56.0 4.32e-01 95.9% 80.0%
5069398 7518.1.1.1 a/b three-layered sandwiches › PK C-terminal domain-like › PK C-terminal domain-like › PK C-terminal domain-like › PK_C 0.67 55.0 4.23e-01 95.9% 81.7%
4026032 7518.1.1.1 a/b three-layered sandwiches › PK C-terminal domain-like › PK C-terminal domain-like › PK C-terminal domain-like › PK_C 0.65 55.0 4.04e-01 98.0% 73.6%
3594483 3105.1.1.0 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related 0.65 55.0 4.06e-01 100.0% 63.6%
4107642 2008.1.1.29 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 0.65 50.0 3.17e-01 87.8% 23.0%
3408662 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.65 54.0 3.36e-01 100.0% 18.4%
3839452 3105.1.1.0 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related 0.65 57.0 4.10e-01 100.0% 65.7%
3786957 4291.1.1.1 beta barrels › Oxysterol-binding protein › Oxysterol-binding protein › Oxysterol-binding protein › Oxysterol_BP 0.64 51.0 3.00e-01 89.8% 37.7%
3391363 2492.1.1.36 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › ODR4-like 0.64 52.0 3.66e-01 100.0% 77.2%
4011234 4291.1.1.0 beta barrels › Oxysterol-binding protein › Oxysterol-binding protein › Oxysterol-binding protein 0.63 54.0 3.20e-01 100.0% 36.5%
3588320 3105.1.1.1 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › TPM_phosphatase 0.63 53.0 3.85e-01 100.0% 98.6%
3288764 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.63 54.0 3.32e-01 100.0% 23.2%
3610566 3105.1.1.1 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › TPM_phosphatase 0.63 52.0 3.87e-01 100.0% 62.1%
4026764 3105.1.1.4 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › MOLO1 0.62 52.0 3.76e-01 100.0% 65.0%
1007200 3105.1.1.1 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › TPM_phosphatase 0.62 50.0 3.72e-01 95.9% 37.2%
5081359 2492.1.1.2 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.62 52.0 3.69e-01 100.0% 64.1%
3390373 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.62 52.0 3.21e-01 100.0% 23.4%
3798247 3105.1.1.0 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related 0.62 52.0 3.74e-01 100.0% 60.0%
3588854 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.62 53.0 3.29e-01 100.0% 18.0%
4211664 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.61 52.0 3.23e-01 100.0% 17.4%
4032339 3585.1.1.0 a+b two layers › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain 0.61 46.0 4.22e-01 91.8% 60.0%
3590787 3585.1.1.0 a+b two layers › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain 0.60 50.0 4.52e-01 98.0% 64.9%
4232299 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.60 48.0 4.10e-01 100.0% 96.8%
4177319 3585.1.1.1 a+b two layers › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA_pol_IIIA_C 0.60 50.0 4.31e-01 98.0% 57.6%
3969045 3585.1.1.1 a+b two layers › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA_pol_IIIA_C 0.60 50.0 4.30e-01 98.0% 60.2%
3956765 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.60 49.0 3.06e-01 100.0% 22.2%
1016762 237.1.1.12 a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › Exotox-A_cataly 0.59 46.0 3.13e-01 95.9% 20.8%
3797963 3105.1.1.4 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › MOLO1 0.59 49.0 3.44e-01 100.0% 66.7%
3737649 3873.1.1.1 a+b two layers › Serine/threonine-protein kinase GCN2 C-terminal domain › Serine/threonine-protein kinase GCN2 C-terminal domain › Serine/threonine-protein kinase GCN2 C-terminal domain › HGTP_anticodon2 0.59 47.0 3.70e-01 93.9% 64.3%
3278402 71.2.1.1 beta meanders › Lipoprotein localization factors LolAB › PA1994-like › PA1994-like › Glycolipid_bind 0.59 48.0 3.40e-01 100.0% 36.2%
4346470 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.58 51.0 3.17e-01 100.0% 25.7%
5052597 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.58 46.0 3.39e-01 89.8% 34.3%
3594362 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.58 49.0 3.03e-01 100.0% 15.9%
5045797 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.58 49.0 3.40e-01 100.0% 35.3%
3329169 2006.1.4.4 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N 0.57 49.0 3.38e-01 100.0% 90.3%
3250585 109.4.1.791 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_17 0.57 47.0 2.73e-01 100.0% 10.3%
3838580 2006.1.4.4 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N 0.57 49.0 3.37e-01 100.0% 58.3%
4938889 223.1.1.25 a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_9 0.57 43.0 3.32e-01 89.8% 46.2%
5073839 2008.5.1.1 a/b three-layered sandwiches › Restriction endonuclease-like › Uncharacterized protein AF_2093 C-terminal domain › Uncharacterized protein AF_2093 C-terminal domain › DUF6834_C 0.56 46.0 3.51e-01 100.0% 64.4%
4930407 869.1.1.1 a+b complex topology › Methenyltetrahydromethanopterin cyclohydrolase › Methenyltetrahydromethanopterin cyclohydrolase › Methenyltetrahydromethanopterin cyclohydrolase › MCH 0.56 45.0 2.84e-01 93.9% 32.2%
3527717 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.56 42.0 4.17e-01 89.8% 83.0%
3838596 2008.1.1.85 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_TdeIII 0.55 46.0 3.16e-01 100.0% 34.6%
3761598 2008.1.1.29 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 0.55 43.0 2.77e-01 98.0% 22.9%
3963009 237.1.1.11 a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › RES 0.54 43.0 2.99e-01 98.0% 33.0%
1548765 225.1.1.0 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 0.53 39.0 3.11e-01 79.6% 44.1%
3790157 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.53 46.0 2.98e-01 100.0% 28.1%
3958774 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.53 41.0 2.75e-01 100.0% 23.7%
3219826 70.3.1.1 beta barrels › beta-clip › SET domain-like › SET domain-like › SET 0.52 40.0 2.53e-01 85.7% 43.8%
3711637 70.3.1.1 beta barrels › beta-clip › SET domain-like › SET domain-like › SET 0.52 40.0 2.50e-01 83.7% 13.7%
3612587 4357.1.1.0 beta barrels › WWE domain › WWE domain › WWE domain 0.52 37.0 3.62e-01 87.8% 68.3%
4360285 323.1.1.0 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.52 42.0 3.04e-01 93.9% 32.0%