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NC_042032.1__YP_009614171.1__FDI61_gp053__00053

Bact-Vir

NC_042032.1__YP_009614171.1__FDI61_gp053__00053

Identity

Accession:
NC_042032 ↗
Kingdom:
phage

Quality

89.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Marvinvirus› Mycobacterium_phage_Marvin

TaxID: 1034139

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 2-98
PDB
Domain cluster: rep: MH399771.1__AXC37214.1__SEA_BYCHANCE_31__00031__D2-82
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2yviA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.57 38.0 3.94e-01 92.8% 74.2%
1rc2A00 1.20.1080.10 Mainly Alpha › Up-down Bundle › Glycerol uptake facilitator protein › Glycerol uptake facilitator protein. 0.54 38.0 2.92e-01 72.2% 64.5%
2jx0A00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.52 35.0 3.23e-01 70.1% 76.3%
7vwtA01 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.51 40.0 2.88e-01 86.6% 31.1%
2ijqA00 1.10.3450.10 Mainly Alpha › Orthogonal Bundle › Hyaluronidase domain-like › TTHA0068-like 0.50 37.0 3.29e-01 78.4% 66.2%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3743822 109.4.1.301 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Hid1 0.54 40.0 2.89e-01 78.4% 80.3%
5017690 101.1.6.43 ↗ alpha arrays › HTH › HTH › TrpR › DUF4277 0.51 33.0 3.07e-01 73.2% 53.3%
D2 medium residues 108-384
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01083.29 best Cutinase 26.7 6.90e-06 42.2% 35.8%
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1agyA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.79 43.0 5.11e-01 91.0% 75.1%
3hc7A01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.78 45.0 5.51e-01 88.4% 84.7%
3huuC02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.74 26.0 3.84e-01 90.3% 67.7%
3zl8A03 3.90.190.20 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Mur ligase, C-terminal domain 0.70 34.0 4.72e-01 100.0% 91.4%
1o5zA02 3.90.190.20 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Mur ligase, C-terminal domain 0.67 32.0 4.43e-01 100.0% 89.1%
4pscA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.67 41.0 4.64e-01 90.6% 77.7%
4dzrA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.66 27.0 3.46e-01 91.3% 62.0%
1g66A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.66 48.0 5.56e-01 89.5% 99.0%
3e0vB01 3.40.1380.20 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate Kinase; Chain: A, domain 1 › Pyruvate kinase, C-terminal domain 0.64 30.0 3.89e-01 90.3% 74.5%
3wrwA01 3.40.50.12020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Uncharacterised protein family UPF0261, NN domain 0.61 35.0 4.24e-01 91.0% 83.8%
4c12A03 3.90.190.20 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Mur ligase, C-terminal domain 0.61 33.0 4.28e-01 100.0% 91.7%
3plnA03 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.58 28.0 3.63e-01 96.8% 78.6%
5b55A01 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.55 33.0 3.86e-01 94.9% 84.2%
1tdjA01 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 37.0 4.12e-01 96.4% 85.2%
2gn0B01 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 37.0 4.10e-01 96.4% 85.7%
1kqpA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.54 34.0 3.46e-01 96.0% 62.4%
7x2pA01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.53 38.0 4.31e-01 89.9% 94.3%
5ybwA01 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 37.0 3.99e-01 94.9% 83.5%
4uuwA03 3.90.950.20 Alpha Beta › Alpha-Beta Complex › Maf protein › CinA-like 0.53 25.0 3.29e-01 87.7% 80.3%
3ds8A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.52 39.0 4.12e-01 89.9% 83.4%
2pqmB01 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.52 37.0 3.99e-01 99.6% 84.1%
3nwpA00 3.40.50.1360 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.52 34.0 3.71e-01 96.4% 76.8%
4bwvA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.52 31.0 3.46e-01 92.8% 71.4%
4nesA01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.51 33.0 3.86e-01 90.6% 88.9%
4d9kA01 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 35.0 3.67e-01 96.4% 75.4%
5ygrB01 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 37.0 3.84e-01 96.4% 79.8%
ECOD (27)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4282293 7579.1.1.11 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Cutinase 0.79 43.0 4.91e-01 91.0% 70.0%
3961700 7579.1.1.11 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Cutinase 0.77 43.0 5.60e-01 89.9% 92.1%
4020136 7579.1.1.11 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Cutinase 0.74 42.0 4.99e-01 90.6% 78.0%
3268117 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.68 28.0 4.32e-01 90.3% 90.4%
4072936 2003.1.5.53 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.67 32.0 3.71e-01 94.2% 59.1%
1349644 7579.1.1.11 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Cutinase 0.67 41.0 4.78e-01 90.3% 82.8%
4683206 7570.1.1.1 ↗ a/b three-layered sandwiches › MurD-like peptide ligases, peptide-binding domain › MurD-like peptide ligases, peptide-binding domain › MurD-like peptide ligases, peptide-binding domain › Mur_ligase_C 0.65 32.0 4.39e-01 100.0% 88.5%
4268445 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.64 28.0 3.45e-01 89.2% 60.5%
2627900 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 0.64 30.0 4.25e-01 90.6% 91.1%
3439046 7579.1.1.6 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Abhydrolase_1 0.62 25.0 3.53e-01 83.8% 73.3%
4065997 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.62 28.0 3.65e-01 90.3% 71.6%
4383499 7514.1.1.1 ↗ a/b three-layered sandwiches › Ferredoxin reductase-like, C-terminal NADP-linked domain › Ferredoxin reductase-like, C-terminal NADP-linked domain › Ferredoxin reductase-like, C-terminal NADP-linked domain › NAD_binding_1 0.61 29.0 4.01e-01 99.6% 88.9%
3963832 7579.1.1.33 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Ser_hydrolase 0.59 37.0 4.68e-01 89.9% 100.0%
3673272 2003.1.5.31 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › GRAS 0.59 34.0 2.98e-01 94.2% 37.2%
3968637 7579.1.1.33 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Ser_hydrolase 0.57 37.0 4.51e-01 89.5% 97.3%
4017136 7579.1.1.25 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › FSH1 0.56 37.0 4.37e-01 88.4% 93.8%
4991766 7579.1.1.6 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Abhydrolase_1 0.55 36.0 4.25e-01 89.9% 91.0%
3968546 7579.1.1.50 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › VirJ 0.55 38.0 4.39e-01 90.3% 93.3%
3962455 7579.1.1.0 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases 0.54 38.0 4.47e-01 99.6% 100.0%
4946480 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 33.0 3.50e-01 100.0% 68.0%
4399955 2003.1.2.28 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Lys_Orn_oxgnase 0.53 29.0 3.78e-01 93.1% 92.5%
3906378 7579.1.1.57 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Abhydrolase_11 0.53 39.0 4.28e-01 89.5% 89.4%
3930834 2003.4.1.1 ↗ a/b three-layered sandwiches › Rossmann-like › Tryptophan synthase beta subunit-like PLP-dependent enzymes › Tryptophan synthase beta subunit-like PLP-dependent enzymes › PALP 0.52 34.0 3.93e-01 91.3% 87.3%
3241008 2003.1.7.4 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NagB/RpiA/CoA transferase-like › Glucosamine_iso 0.52 35.0 3.74e-01 96.8% 75.2%
2600450 7579.1.1.30 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › DUF915 0.52 39.0 4.12e-01 89.9% 83.4%
4447637 2003.1.7.4 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NagB/RpiA/CoA transferase-like › Glucosamine_iso 0.52 34.0 3.73e-01 97.5% 77.4%
3250926 2003.4.1.1 ↗ a/b three-layered sandwiches › Rossmann-like › Tryptophan synthase beta subunit-like PLP-dependent enzymes › Tryptophan synthase beta subunit-like PLP-dependent enzymes › PALP 0.51 33.0 3.85e-01 92.4% 89.2%