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NC_020081.2__YP_008855202.1__G380_gp004__00004

Bact-Vir

NC_020081.2__YP_008855202.1__G380_gp004__00004

Identity

Accession:
NC_020081 ↗
Kingdom:
phage

Quality

93.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Agatevirus› Bacillus_phage_phiAGATE

TaxID: 1204533

Cluster

View cluster (6 members)

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 medium residues 1-29_94-131
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.67 32.0 2.78e-01 100.0% 29.4%
1xg2B00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.62 56.0 4.31e-01 100.0% 76.2%
3h3mA00 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.62 39.0 3.50e-01 100.0% 48.3%
7b7tA01 1.20.1270.30 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.57 46.0 3.56e-01 92.5% 79.5%
1cnt200 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.53 49.0 3.85e-01 100.0% 53.8%
1xlyA00 1.20.200.20 Mainly Alpha › Up-down Bundle › Fumarase C; Chain A, domain 2 › She2 domain 0.53 46.0 3.25e-01 100.0% 51.8%
1sj8A02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.50 42.0 3.57e-01 98.5% 77.0%
6wh0A01 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.50 37.0 2.91e-01 79.1% 100.0%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5051886 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.68 49.0 4.69e-01 100.0% 65.0%
3229078 150.5.1.124 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › Claudin_3 0.56 37.0 3.31e-01 100.0% 48.4%
3965185 633.2.1.0 ↗ alpha bundles › Bromodomain-like › Carnobacteriocin B2 immunity protein › Carnobacteriocin B2 immunity protein 0.54 46.0 4.56e-01 100.0% 94.3%
3597219 5076.2.1.0 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ 0.53 37.0 2.57e-01 73.1% 61.6%
3916718 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.52 39.0 3.32e-01 85.1% 100.0%
D2 medium residues 30-93
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2cqaA01 2.40.50.360 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RuvBL1 DNA/RNA binding domain 0.58 49.0 4.69e-01 95.3% 100.0%
1sjiA03 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.57 48.0 4.03e-01 100.0% 80.6%
1a15A00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 33.0 3.30e-01 92.2% 53.7%
5l2qB02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.57 46.0 3.44e-01 98.4% 38.9%
1h8uB00 3.10.100.10 Alpha Beta › Roll › Mannose-Binding Protein A; Chain A › Mannose-Binding Protein A, subunit A 0.55 46.0 3.93e-01 100.0% 89.7%
1q25A01 2.70.130.10 Mainly Beta › Distorted Sandwich › Cation-dependent Mannose-6-phosphate Receptor; Chain A › Mannose-6-phosphate receptor binding domain 0.54 48.0 3.86e-01 100.0% 56.8%
4fw1A02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.52 34.0 3.68e-01 100.0% 81.5%
1tkeA03 3.30.54.20 Alpha Beta › 2-Layer Sandwich › Replication Terminator Protein; Chain A, domain 2 › 0.51 38.0 3.92e-01 84.4% 91.4%
ECOD (22)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3482775 64.1.1.0 ↗ beta meanders › WW domain-like › WW domain › WW domain 0.67 33.0 3.87e-01 96.9% 66.7%
3228859 64.1.1.1 ↗ beta meanders › WW domain-like › WW domain › WW domain › WW 0.65 34.0 4.43e-01 96.9% 94.3%
3473634 64.1.1.0 ↗ beta meanders › WW domain-like › WW domain › WW domain 0.64 32.0 4.14e-01 92.2% 88.6%
3245061 389.1.1.0 ↗ few secondary structure elements › EGF-like › EGF-related › EGF/Laminin 0.63 38.0 4.23e-01 95.3% 76.0%
3229299 209.1.1.1 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.59 51.0 4.19e-01 100.0% 80.0%
3216183 209.1.1.1 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.59 50.0 3.91e-01 100.0% 70.7%
4081027 2.1.1.10 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › EFP 0.58 47.0 4.73e-01 89.1% 100.0%
4261250 213.1.1.2 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1,Hat1_N 0.58 50.0 3.66e-01 100.0% 50.0%
3885154 209.1.1.1 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.58 50.0 3.49e-01 100.0% 95.0%
3236450 209.1.1.1 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.58 50.0 3.97e-01 100.0% 77.0%
4162562 213.1.1.22 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Hat1_N 0.57 49.0 3.59e-01 100.0% 70.3%
3625572 209.1.1.1 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.57 48.0 3.89e-01 100.0% 83.0%
3556688 288.1.1.5 ↗ a+b four layers › CNF1/YfiH-like putative cysteine hydrolases › CNF1/YfiH-like putative cysteine hydrolases › CNF1/YfiH-like putative cysteine hydrolases › N_Asn_amidohyd 0.57 48.0 3.11e-01 93.8% 51.4%
3795460 209.1.1.1 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.56 47.0 3.83e-01 100.0% 75.4%
3801683 209.1.1.0 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like 0.56 47.0 4.09e-01 100.0% 86.7%
4941624 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 40.0 4.41e-01 96.9% 100.0%
3494381 288.1.1.5 ↗ a+b four layers › CNF1/YfiH-like putative cysteine hydrolases › CNF1/YfiH-like putative cysteine hydrolases › CNF1/YfiH-like putative cysteine hydrolases › N_Asn_amidohyd 0.55 46.0 3.11e-01 95.3% 59.5%
3013484 209.1.1.1 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.54 46.0 3.70e-01 100.0% 76.5%
3839135 2004.1.1.76 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF87 0.54 45.0 2.80e-01 98.4% 76.1%
3591970 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.52 43.0 2.78e-01 100.0% 52.6%
3869511 1170.1.1.1 ↗ beta barrels › IL8-related › IL8-related › IL8 › IL8 0.51 37.0 3.40e-01 81.2% 78.9%
4525536 3523.1.1.2 ↗ beta meanders › Periplasmic lipopolysaccharide transport protein LptA (YhbN) › Periplasmic lipopolysaccharide transport protein LptA (YhbN) › Periplasmic lipopolysaccharide transport protein LptA (YhbN) › LptD_N 0.50 43.0 3.42e-01 96.9% 63.0%