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NC_018272.1__YP_006560405.1__B618_gp06__00006

Bact-Vir

NC_018272.1__YP_006560405.1__B618_gp06__00006

Identity

Accession:
NC_018272 ↗
Kingdom:
phage

Quality

78.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Inhavirus› Nonlabens_phage_P12024L

TaxID: 1168479

Cluster

Singleton — not in a non-trivial cluster

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 high residues 382-556
PDB
D2 medium residues 21-100_326-356
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2iazA00 1.20.1500.10 Mainly Alpha › Up-down Bundle › YheA-like fold › YheA/YmcA-like 0.62 32.0 3.27e-01 90.1% 50.0%
3qnmA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.52 35.0 3.82e-01 70.3% 94.4%
2c0kB00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.51 37.0 3.45e-01 78.4% 76.5%
1w9rA00 1.20.58.440 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › choline binding protein A 0.50 37.0 3.67e-01 76.6% 85.7%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4954546 4038.1.1.0 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein 0.77 66.0 4.77e-01 91.0% 84.8%
5004294 4038.1.1.0 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein 0.73 61.0 4.52e-01 89.2% 89.6%
3775101 7061.1.1.1 ↗ few secondary structure elements › VWF C8-3 module › VWF C8-3 module › VWF C8-3 module › C8 0.64 47.0 4.80e-01 88.3% 80.0%
2721534 7061.1.1.1 ↗ few secondary structure elements › VWF C8-3 module › VWF C8-3 module › VWF C8-3 module › C8 0.63 44.0 4.86e-01 82.9% 93.0%
4934796 6049.1.1.0 ↗ alpha bundles › PH0832-like › PH0832-like › PH0832-like 0.51 30.0 3.34e-01 95.5% 73.3%
D3 medium residues 208-269
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1zynA00 3.40.30.80 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › 0.64 47.0 3.32e-01 79.0% 45.4%
3h79A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.63 44.0 3.62e-01 72.6% 60.0%
4dh4A00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.63 50.0 4.09e-01 87.1% 86.8%
5j7dC00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.61 42.0 3.57e-01 72.6% 60.4%
4cw9B00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.60 42.0 3.61e-01 74.2% 60.6%
3vfiA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.59 40.0 3.46e-01 71.0% 59.6%
3gb0A01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.59 41.0 2.79e-01 75.8% 54.8%
5mrvA00 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.59 43.0 2.85e-01 82.3% 69.4%
3wgxB00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.58 40.0 3.42e-01 74.2% 58.0%
2xczA00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.58 45.0 3.79e-01 87.1% 87.7%
2i7tA01 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.58 40.0 2.67e-01 72.6% 97.3%
2l57A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.57 41.0 3.31e-01 75.8% 46.0%
2nbsA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.57 42.0 3.48e-01 80.6% 56.9%
3a1fA00 3.40.50.80 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module 0.57 40.0 3.06e-01 77.4% 85.9%
1cgqA00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.56 43.0 3.62e-01 87.1% 86.1%
4j56E00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 39.0 3.40e-01 75.8% 61.0%
3c6vA00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.55 42.0 3.28e-01 85.5% 68.5%
3e6qA00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.54 43.0 3.55e-01 91.9% 85.7%
1r5pB00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.54 43.0 3.91e-01 95.2% 100.0%
4v1ag00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.53 36.0 2.75e-01 71.0% 68.2%
2bx2L02 3.40.1260.20 Alpha Beta › 3-Layer(aba) Sandwich › Hypothetical Protein Ychn; Chain: A, › Ribonuclease E, catalytic domain 0.52 44.0 3.74e-01 100.0% 58.2%
1vw5B00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.52 43.0 3.53e-01 90.3% 58.4%
3cinA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.51 42.0 3.72e-01 100.0% 77.9%
2wabA02 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.51 42.0 2.99e-01 95.2% 56.5%
1d1rA00 3.30.780.10 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor Eif1 › SUI1-like domain 0.51 36.0 3.27e-01 74.2% 92.8%
2xkbL00 3.40.50.1440 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Tubulin/FtsZ, GTPase domain 0.51 42.0 2.73e-01 98.4% 62.5%
3w6gA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.50 37.0 2.95e-01 83.9% 53.1%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
153952 315.1.1.1 ↗ a+b two layers › Tautomerase/MIF-like › Tautomerase/MIF › Tautomerase/MIF › MIF 0.63 50.0 4.09e-01 87.1% 86.8%
5057686 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.62 45.0 3.52e-01 77.4% 47.9%
5037375 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.61 44.0 3.58e-01 77.4% 53.3%
140482 315.1.1.1 ↗ a+b two layers › Tautomerase/MIF-like › Tautomerase/MIF › Tautomerase/MIF › MIF 0.58 45.0 3.79e-01 87.1% 87.7%
3782017 2485.1.1.1 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin 0.58 41.0 3.46e-01 75.8% 59.1%
3539254 2485.1.1.1 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin 0.58 41.0 3.28e-01 75.8% 50.0%
4426593 563.1.1.1 ↗ alpha bundles › ATPD N-terminal domain-like › N-terminal domain of the delta subunit of the F1F0-ATP synthase › N-terminal domain of the delta subunit of the F1F0-ATP synthase › OSCP 0.57 41.0 3.01e-01 75.8% 42.9%
4954546 4038.1.1.0 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein 0.57 39.0 2.52e-01 71.0% 24.1%
5008728 2003.1.6.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Tubulin nucleotide-binding domain-like › Tubulin 0.56 48.0 3.08e-01 100.0% 54.3%
3176876 2485.1.1.20 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Glrx-like 0.56 42.0 3.59e-01 85.5% 49.0%
3270788 2485.1.1.1 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin 0.56 38.0 3.20e-01 72.6% 57.4%
3590909 4038.1.1.1 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal 0.55 44.0 2.93e-01 91.9% 20.0%
4975149 1036.1.1.1 ↗ a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › NMD3 0.54 42.0 3.64e-01 85.5% 98.0%
4025136 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 40.0 2.59e-01 82.3% 89.5%
3551540 2011.1.1.8 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases › Peptidase_M28 0.53 43.0 2.86e-01 98.4% 87.5%
3392088 2011.1.1.0 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases 0.53 43.0 2.93e-01 98.4% 91.7%
3688584 301.7.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › YjgF-like › YjgF-like › Ribonuc_L-PSP 0.53 45.0 3.55e-01 100.0% 52.9%
4569254 2007.1.2.9 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › DUF3798 0.53 41.0 3.06e-01 90.3% 49.4%
3947685 4038.1.1.1 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal 0.51 43.0 3.02e-01 96.8% 26.7%
3632207 2007.1.3.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like 0.51 37.0 3.34e-01 80.6% 53.3%
3417516 2003.1.1.53 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › NmrA 0.51 39.0 3.14e-01 95.2% 37.9%
2674778 563.1.1.1 ↗ alpha bundles › ATPD N-terminal domain-like › N-terminal domain of the delta subunit of the F1F0-ATP synthase › N-terminal domain of the delta subunit of the F1F0-ATP synthase › OSCP 0.51 36.0 2.70e-01 79.0% 40.4%
5037796 4143.1.1.0 ↗ a+b two layers › THUMP domain-like › THUMP domain-like › THUMP domain-like 0.51 36.0 3.40e-01 80.6% 64.7%
3179912 315.1.1.1 ↗ a+b two layers › Tautomerase/MIF-like › Tautomerase/MIF › Tautomerase/MIF › MIF 0.50 40.0 3.27e-01 91.9% 83.1%