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NC_005964.2__YP_044796.1__phiMFV1_p09__00007

Bact-Vir

NC_005964.2__YP_044796.1__phiMFV1_p09__00007

Identity

Accession:
NC_005964 ↗
Kingdom:
phage

Quality

77.8 mean pLDDT

Taxonomy

Mycoplasma_phage_phiMFV1

TaxID: 280702

Cluster

View cluster (7 members)

3D Structure

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Domains

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

D1 medium residues 15-80_197-209_266-358
PDB
Domain cluster: representative
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2hl7A00 1.10.8.640 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Cytochrome C biogenesis protein 0.60 28.0 3.84e-01 86.6% 89.0%
3behB01 1.20.120.540 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels 0.53 28.0 3.37e-01 87.2% 74.4%
1siqA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.51 32.0 3.36e-01 82.6% 67.1%
2pg0A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.51 32.0 3.41e-01 82.6% 70.5%
3gp4B00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.51 34.0 3.87e-01 85.5% 89.2%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4676609 4038.1.1.10 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Portal_Mu 0.73 65.0 5.34e-01 95.3% 98.0%
3666876 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.53 33.0 3.81e-01 79.7% 83.1%
4585740 101.11.1.0 ↗ alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 0.53 28.0 3.79e-01 79.7% 100.0%
3957185 633.6.1.1 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA_dh_1 0.51 32.0 3.35e-01 82.6% 66.5%
4983842 633.6.1.1 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA_dh_1 0.51 32.0 3.40e-01 83.1% 69.3%
D2 medium residues 81-196
PDB
Domain cluster: representative
CATH (22)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2kt4B01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.64 40.0 3.72e-01 76.7% 49.3%
1ul7A00 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.64 42.0 4.50e-01 78.4% 76.5%
1m2xA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.62 34.0 2.77e-01 78.4% 27.9%
2pwwA00 3.30.310.100 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › YugN-like 0.61 45.0 4.59e-01 78.4% 83.5%
1epaA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.59 38.0 3.42e-01 77.6% 45.6%
3l4rA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.58 36.0 3.37e-01 77.6% 47.7%
1y8cA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.58 29.0 3.94e-01 76.7% 93.3%
3nreA00 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.58 45.0 3.31e-01 81.0% 98.6%
1kyfA02 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.56 42.0 4.29e-01 78.4% 96.5%
4ebrA00 3.30.1460.50 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.55 43.0 3.93e-01 84.5% 81.5%
3qkgA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.55 39.0 3.51e-01 74.1% 90.2%
4ggtB00 2.40.128.30 Mainly Beta › Beta Barrel › Lipocalin › Avidin-like 0.54 38.0 3.95e-01 82.8% 78.3%
3bnvD00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.53 41.0 3.83e-01 81.0% 87.4%
3jv1A00 3.10.280.10 Alpha Beta › Roll › Mitochondrial Matrix Protein; Chain A › Mitochondrial glycoprotein 0.53 44.0 3.82e-01 90.5% 71.4%
1ko2A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.52 39.0 3.17e-01 80.2% 91.7%
2e5aA02 3.30.390.50 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › CO dehydrogenase flavoprotein, C-terminal domain 0.52 40.0 4.36e-01 82.8% 100.0%
4ifdE00 3.30.230.70 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › GHMP Kinase, N-terminal domain 0.52 40.0 3.06e-01 81.0% 88.0%
2qxlB05 2.60.34.10 Mainly Beta › Sandwich › Substrate Binding Domain Of DNAk; Chain A, domain 1 › Substrate Binding Domain Of DNAk; Chain A, domain 1 0.52 39.0 3.80e-01 78.4% 89.0%
8fkmA01 3.30.1460.50 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.51 39.0 3.57e-01 82.8% 89.6%
3wmyA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.51 40.0 2.95e-01 83.6% 75.5%
4bs9A05 3.30.160.660 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.50 38.0 3.87e-01 78.4% 91.2%
4wfvA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.50 37.0 3.41e-01 77.6% 59.5%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3279607 9.3.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Quinohemoprotein amine dehydrogenase A chain, domain 3-like › Quinohemoprotein amine dehydrogenase A chain, domain 3-like 0.67 41.0 4.38e-01 81.0% 70.0%
4982249 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.62 43.0 4.65e-01 78.4% 85.3%
4977909 331.10.2.0 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase 0.61 43.0 4.45e-01 75.9% 77.3%
4932706 2004.1.1.198 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.57 41.0 2.62e-01 74.1% 20.5%
4346250 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.57 44.0 4.17e-01 81.9% 82.1%
3230598 216.1.1.0 ↗ a+b two layers › UBC-like › UBC-like › UBC-like 0.56 44.0 4.09e-01 83.6% 80.7%
3897847 216.1.1.2 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › Autophagy_act_C 0.56 44.0 3.91e-01 84.5% 87.0%
3794870 216.1.1.2 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › Autophagy_act_C 0.55 42.0 3.80e-01 81.0% 80.0%
5032125 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.55 42.0 3.24e-01 81.0% 97.3%
5047469 331.10.2.0 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase 0.54 40.0 3.92e-01 78.4% 76.2%
4827588 2003.1.5.81 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 0.53 31.0 2.74e-01 77.6% 37.7%
3427875 241.15.1.2 ↗ a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain › PI31_Prot_N 0.53 42.0 3.77e-01 81.9% 69.0%
4975739 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.53 45.0 3.15e-01 93.1% 96.6%
3402087 868.1.1.0 ↗ a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related 0.53 43.0 3.74e-01 85.3% 95.3%
3258590 4210.1.1.0 ↗ a+b two layers › WGR domain › WGR domain › WGR domain 0.52 39.0 4.26e-01 86.2% 93.7%
5026249 2004.1.1.87 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.52 46.0 3.43e-01 95.7% 95.4%
4950969 2004.1.1.87 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.52 45.0 2.99e-01 94.8% 97.2%
4049494 5.1.2.6 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › Glyco_hydro_62 0.52 41.0 2.99e-01 83.6% 73.0%
4954283 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.52 39.0 3.60e-01 80.2% 92.0%
3559952 71.2.1.4 ↗ beta meanders › Lipoprotein localization factors LolAB › PA1994-like › PA1994-like › CATIP_N 0.51 45.0 3.60e-01 97.4% 84.6%
4974736 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.51 38.0 3.61e-01 79.3% 97.9%
2491359 243.19.1.0 ↗ a+b two layers › Cystatin-like › Phi ETA orf 56-like protein C-terminal domains › Phi ETA orf 56-like protein C-terminal domains 0.51 37.0 3.55e-01 75.9% 72.1%
4165476 2004.1.1.799 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_27, AAA_29 0.51 44.0 2.95e-01 95.7% 97.0%
4941093 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.51 38.0 3.54e-01 79.3% 98.0%
4026006 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.50 32.0 3.74e-01 75.0% 92.5%
5010861 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.50 39.0 2.77e-01 83.6% 45.7%
D3 medium residues 210-265
PDB