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NC_020083.1__YP_007349157.1__G646_gp178__00178

Bact-Vir

NC_020083.1__YP_007349157.1__G646_gp178__00178

Identity

Accession:
NC_020083 ↗
Kingdom:
phage

Quality

72.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Ackermannviridae› Miltonvirus› Serratia_phage_phiMAM1

TaxID: 1262513

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 60-110
PDB
D2 high residues 119-169
PDB
Domain cluster: representative
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2e1qC01 3.10.20.30 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Beta-grasp domain 0.70 48.0 3.99e-01 100.0% 40.2%
1cjaA02 1.10.1070.11 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › Phosphatidylinositol 3-/4-kinase, catalytic domain 0.61 43.0 2.98e-01 74.5% 56.5%
2jveA00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.60 43.0 3.94e-01 100.0% 57.7%
2wadA02 3.90.1310.10 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) 0.59 43.0 3.18e-01 100.0% 27.7%
6j7xC01 3.30.450.50 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Longin domain 0.59 43.0 3.20e-01 80.4% 73.6%
1wsrA02 3.30.70.1400 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Aminomethyltransferase beta-barrel domains 0.58 49.0 4.14e-01 98.0% 98.9%
1vq8B03 3.30.1430.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L3; Chain: B; domain 2, › 0.58 49.0 3.91e-01 100.0% 90.1%
2j3wC00 3.30.450.70 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.57 41.0 3.05e-01 76.5% 70.4%
4mlaA03 3.40.462.10 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › FAD-linked oxidases, C-terminal domain 0.57 46.0 3.11e-01 94.1% 44.8%
1pqsA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.56 37.0 3.33e-01 100.0% 45.5%
1wfuA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 42.0 3.53e-01 100.0% 45.3%
2l48A00 3.30.70.2030 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 45.0 3.98e-01 98.0% 78.8%
1mt1B00 3.50.20.10 Alpha Beta › 3-Layer(bba) Sandwich › Pyruvoyl-Dependent Histidine Decarboxylase; Chain B › Pyruvoyl-Dependent Histidine Decarboxylase, subunit B 0.56 44.0 3.48e-01 88.2% 79.5%
3p96A02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.56 48.0 4.16e-01 100.0% 91.7%
3n6xA03 3.30.1490.270 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.56 41.0 4.06e-01 100.0% 73.2%
1xvwA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.55 40.0 2.86e-01 78.4% 40.5%
1ctfA00 3.30.1390.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L30; Chain: A, › Ribosomal protein L7/L12, C-terminal domain/Adaptor protein ClpS 0.55 43.0 4.08e-01 98.0% 100.0%
2v3sA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.55 45.0 3.81e-01 100.0% 97.9%
2hf6A00 3.30.450.60 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.55 40.0 2.93e-01 78.4% 61.7%
3bm4A00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.54 45.0 3.12e-01 98.0% 70.6%
2qlcA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.54 44.0 3.42e-01 96.1% 73.0%
1lvmA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.54 41.0 3.29e-01 100.0% 40.6%
1w5dA01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.54 42.0 2.90e-01 100.0% 61.5%
3n0vA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.53 43.0 3.85e-01 100.0% 91.7%
3b7yA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.53 44.0 3.31e-01 100.0% 86.8%
1v8wA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.53 43.0 3.22e-01 98.0% 79.2%
1g13A00 2.70.220.10 Mainly Beta › Distorted Sandwich › Ganglioside M2 Activator Protein; Chain: A, › Ganglioside GM2 activator 0.53 45.0 3.22e-01 100.0% 61.1%
4qbuA03 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.53 42.0 4.02e-01 100.0% 100.0%
7u32F02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.53 45.0 4.55e-01 100.0% 98.0%
3tzyA02 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.52 42.0 3.92e-01 100.0% 87.1%
2pbzA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.52 41.0 2.97e-01 94.1% 99.4%
1d0nA06 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.52 37.0 2.90e-01 78.4% 65.4%
3cqbB01 3.30.2010.10 Alpha Beta › 2-Layer Sandwich › Zincin-like › "Metalloproteases (""zincins""), catalytic domain" 0.51 39.0 3.35e-01 90.2% 73.4%
3h96C00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.51 42.0 3.19e-01 100.0% 44.2%
4p6zM01 3.30.450.60 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.51 41.0 3.18e-01 92.2% 43.0%
3klqA01 2.60.40.3050 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 38.0 3.03e-01 88.2% 91.6%
2vl6A03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.50 39.0 4.04e-01 100.0% 97.9%
2hg6A00 3.90.1650.10 Alpha Beta › Alpha-Beta Complex › PA1123-like › PA1123-like 0.50 41.0 3.39e-01 100.0% 74.5%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4218574 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.67 54.0 4.40e-01 90.2% 76.8%
3516802 384.1.1.1 ↗ few secondary structure elements › BPTI-like › BPTI-like › BPTI-like › Kunitz_BPTI 0.64 38.0 4.11e-01 92.2% 72.5%
4099762 4020.1.1.1 ↗ a+b two layers › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes › Aminotran_4 0.64 56.0 4.09e-01 100.0% 95.7%
4558763 223.2.1.20 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_1 0.63 47.0 3.45e-01 80.4% 73.3%
4259798 4020.1.1.0 ↗ a+b two layers › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes 0.63 56.0 3.90e-01 100.0% 81.8%
5078643 3662.1.1.0 ↗ a+b two layers › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related 0.61 43.0 3.38e-01 76.5% 83.2%
3739712 223.2.1.10 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Gtr1_RagA 0.60 43.0 3.21e-01 76.5% 74.6%
4219489 304.6.1.3 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › BBE 0.59 49.0 3.18e-01 100.0% 30.9%
3684154 327.5.1.2 ↗ a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins › AMP-binding_C 0.59 42.0 3.64e-01 76.5% 78.8%
3852865 2492.1.1.23 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › NAD2 0.58 44.0 3.05e-01 84.3% 82.2%
4930300 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.58 46.0 3.84e-01 88.2% 80.0%
2323826 4187.2.1.1 ↗ a+b two layers › NosL/MerB-like › DUF2233 › DUF2233 › NAGPA 0.57 45.0 4.10e-01 100.0% 62.8%
5052027 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.57 41.0 3.14e-01 78.4% 76.0%
4042767 223.1.1.103 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › CHASE7, PF30448 0.57 43.0 3.17e-01 82.4% 71.1%
4944860 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.56 41.0 3.06e-01 80.4% 70.7%
5051049 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.56 41.0 3.16e-01 80.4% 80.0%
3250711 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.55 46.0 3.93e-01 98.0% 96.7%
3414928 382.1.1.6 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › QVR 0.55 45.0 3.91e-01 100.0% 62.5%
3790328 2003.1.5.13 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth 0.55 44.0 2.83e-01 94.1% 72.6%
3618924 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 41.0 2.45e-01 78.4% 20.7%
3701677 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.55 44.0 3.17e-01 90.2% 55.3%
4946487 3457.1.1.3 ↗ alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Arc_PepC_II 0.54 43.0 2.90e-01 100.0% 19.6%
3800450 2003.1.5.13 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth 0.54 44.0 2.69e-01 92.2% 58.1%
4972028 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.54 40.0 2.89e-01 80.4% 63.2%
5052185 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.54 40.0 2.98e-01 78.4% 78.5%
3618632 2003.1.5.13 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth 0.54 43.0 2.69e-01 92.2% 67.5%
5070324 3457.1.1.3 ↗ alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Arc_PepC_II 0.53 43.0 2.78e-01 100.0% 18.0%
139586 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.53 43.0 3.86e-01 100.0% 92.8%
3502144 384.1.1.1 ↗ few secondary structure elements › BPTI-like › BPTI-like › BPTI-like › Kunitz_BPTI 0.53 33.0 3.46e-01 96.1% 72.5%
5025566 304.7.1.0 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.53 44.0 4.37e-01 100.0% 98.2%
5041103 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.52 43.0 3.39e-01 96.1% 57.5%
5023452 303.1.1.1 ↗ a+b four layers › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases › PvlArgDC 0.52 44.0 3.22e-01 96.1% 82.1%
4022697 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.52 40.0 3.63e-01 100.0% 90.6%
4329297 2492.1.1.9 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › RadC 0.52 41.0 3.26e-01 96.1% 73.6%
4945021 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 37.0 3.11e-01 88.2% 86.4%
3508212 3115.1.1.6 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › DUF4494 0.50 42.0 3.83e-01 100.0% 70.0%
4280109 2492.1.1.9 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › RadC 0.50 40.0 3.19e-01 96.1% 74.4%