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OR553905.1__WNN95053.1__SEA_MAGRITTE_76__00076

Bact-Vir

OR553905.1__WNN95053.1__SEA_MAGRITTE_76__00076

Identity

Accession:
OR553905 ↗
Kingdom:
phage

Quality

88.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Microbacterium_phage_Magritte

TaxID: 3077798

Cluster

View cluster (16 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 high residues 5-24_137-262
PDB
Domain cluster: rep: 5H_04062016_scaffold_1_prodigal-single.1__X__X__00437__D55-187
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2nvmA00 3.30.310.110 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › XisI-like 0.56 34.0 3.87e-01 82.2% 81.7%
2oojA00 2.40.350.10 Mainly Beta › Beta Barrel › AOC barrel-like › SO1590-like 0.51 33.0 3.53e-01 84.2% 73.3%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3941745 241.15.1.4 ↗ a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain › DUF932 0.67 60.0 6.11e-01 96.6% 95.9%
3967083 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.58 30.0 3.57e-01 75.3% 72.6%
3460934 897.1.1.1 ↗ a+b two layers › Acidic mitochondrial matrix protein p32-like › Acidic mitochondrial matrix protein p32 › Acidic mitochondrial matrix protein p32 › MAM33 0.57 45.0 4.04e-01 98.6% 60.1%
4059717 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.56 32.0 4.00e-01 76.7% 95.3%
3581448 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.56 37.0 4.09e-01 99.3% 84.3%
3330850 243.3.1.12 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › SQAPI 0.55 36.0 4.18e-01 89.0% 96.0%
3488509 216.1.1.2 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › Autophagy_act_C 0.53 43.0 4.04e-01 86.3% 92.2%
3164281 5069.1.1.92 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › CcmF_C 0.53 29.0 3.42e-01 82.2% 76.0%
3224161 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.53 36.0 3.75e-01 89.7% 73.6%
1323413 330.10.1.1 ↗ a+b two layers › dsRBD-like › Heterocyclase TruD C-terminal domain › Heterocyclase TruD C-terminal domain › YcaO 0.53 29.0 3.38e-01 71.2% 75.5%
3670829 5.1.3.144 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › b-prop_At3g26010-like 0.52 39.0 2.97e-01 77.4% 44.8%
3667514 246.2.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.52 42.0 3.21e-01 85.6% 93.6%
3721094 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.50 42.0 3.74e-01 93.2% 76.4%
D2 high residues 29-130
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3a5zD02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.68 40.0 4.83e-01 100.0% 93.8%
1ybyA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.64 38.0 4.53e-01 100.0% 93.8%
1uebA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.63 38.0 4.53e-01 100.0% 95.2%
2ettA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.62 50.0 4.67e-01 87.3% 85.9%
1jb7A03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 51.0 4.41e-01 100.0% 73.4%
2gpiA00 3.30.160.140 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Shew3726-like 0.57 44.0 4.58e-01 93.1% 92.3%
2i46A00 2.40.50.960 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.52 46.0 4.09e-01 100.0% 67.1%
3e0jA01 3.60.21.50 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › 0.51 40.0 2.89e-01 83.3% 82.3%
7co7D03 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.51 40.0 4.20e-01 94.1% 94.7%
3zyyX03 3.10.20.880 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.51 34.0 3.68e-01 100.0% 82.8%
1uhzA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.50 32.0 3.40e-01 93.1% 73.0%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4628905 2.1.1.10 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › EFP 0.69 41.0 4.85e-01 100.0% 90.8%
3424157 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.66 61.0 4.89e-01 100.0% 87.9%
3227986 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.65 44.0 4.84e-01 99.0% 87.5%
3750532 2.1.1.268 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PF30833 0.65 59.0 5.07e-01 100.0% 80.0%
3643750 2.1.1.42 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Rep_fac-A_C 0.64 58.0 4.72e-01 100.0% 70.5%
3591196 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.63 58.0 4.72e-01 100.0% 95.1%
4378811 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.61 54.0 4.81e-01 100.0% 76.7%
3661703 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.61 55.0 5.11e-01 100.0% 80.0%
4974371 213.1.1.25 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_3 0.61 41.0 3.33e-01 100.0% 34.6%
5045224 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.61 41.0 4.40e-01 100.0% 82.4%
4958515 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.61 54.0 4.92e-01 100.0% 85.7%
4169774 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.60 53.0 4.54e-01 100.0% 74.4%
3446497 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.60 52.0 4.70e-01 100.0% 69.7%
3388724 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.59 51.0 4.97e-01 95.1% 99.1%
3572060 277.1.1.0 ↗ a+b two layers › PX domain › PX domain › PX domain 0.58 49.0 4.68e-01 94.1% 94.2%
3674092 2.1.1.68 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › RMI1_C 0.57 51.0 4.48e-01 100.0% 67.7%
3904569 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.57 48.0 4.54e-01 94.1% 99.2%
5052652 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.56 43.0 3.56e-01 100.0% 45.4%
4646288 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.52 31.0 3.28e-01 86.3% 65.6%
3743456 246.2.1.7 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › DNA_pol_E_B 0.51 39.0 2.81e-01 84.3% 85.3%
D3 medium residues 263-385
PDB
Domain cluster: rep: NC_054714.1__YP_010056884.1__KHO57_gp149__00180__D239-342
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3deeA01 1.10.150.690 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DUF2063 0.62 40.0 4.62e-01 81.3% 93.0%
1wlmA01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.59 41.0 4.44e-01 72.4% 100.0%
2kvsA00 1.10.150.260 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › YozE SAM-like 0.58 37.0 4.39e-01 79.7% 97.5%
3cr3A00 1.25.40.340 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › DhaL domain 0.57 43.0 3.73e-01 79.7% 100.0%
1v1gA00 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.56 39.0 3.44e-01 70.7% 91.0%
5u9nB00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.55 42.0 4.27e-01 79.7% 96.7%
1zymA02 1.10.274.10 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › PtsI, HPr-binding domain 0.55 45.0 4.54e-01 90.2% 97.6%
1t3qA02 1.10.150.120 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › [2Fe-2S]-binding domain 0.54 32.0 3.73e-01 74.8% 87.7%
2hroA02 1.10.274.10 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › PtsI, HPr-binding domain 0.53 45.0 4.52e-01 93.5% 96.9%
3oftA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.53 45.0 3.25e-01 95.9% 60.1%
3f5cB00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.51 39.0 3.42e-01 81.3% 74.3%
4usaA02 1.10.150.120 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › [2Fe-2S]-binding domain 0.51 34.0 3.44e-01 77.2% 68.9%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5071262 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.73 56.0 3.87e-01 79.7% 39.5%
4991684 2004.1.1.76 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF87 0.66 49.0 3.82e-01 78.0% 47.6%
4988605 2004.1.1.76 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF87 0.66 49.0 3.45e-01 76.4% 38.9%
3405290 4207.1.2.82 ↗ alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › MED7 hinge region › PF27645 0.64 41.0 4.13e-01 83.7% 63.2%
3697375 4953.1.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like 0.64 48.0 4.81e-01 78.9% 87.2%
3399531 1134.1.1.0 ↗ alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain 0.63 33.0 3.66e-01 97.6% 60.0%
3689393 4953.1.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like 0.63 46.0 4.81e-01 77.2% 90.4%
5032214 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.62 41.0 4.79e-01 78.0% 97.6%
3714654 102.1.1.0 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like 0.60 36.0 4.33e-01 82.1% 92.5%
4180990 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.58 38.0 4.46e-01 82.9% 100.0%
3621979 3198.1.1.1 ↗ alpha bundles › ABA-1 repeat unit › ABA-1 repeat unit › ABA-1 repeat unit › NPA 0.57 35.0 3.55e-01 76.4% 60.8%
3889043 5052.1.1.1 ↗ alpha complex topology › Proton glutamate symport protein › Proton glutamate symport protein › Proton glutamate symport protein › SDF 0.57 43.0 3.54e-01 80.5% 51.5%
3532811 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.56 37.0 3.92e-01 88.6% 75.5%
3857124 108.1.1.12 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › p25-alpha 0.56 42.0 4.05e-01 81.3% 77.2%
4977938 131.1.1.3 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD 0.54 40.0 3.74e-01 78.9% 80.6%
3945052 607.1.1.1 ↗ alpha arrays › Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain › Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain › Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain › PEP-utilisers_N 0.54 46.0 4.67e-01 95.1% 98.4%
5005973 3625.1.1.0 ↗ alpha bundles › CRISPR RNA silencing complex Cmr2 subunit second helical domain › CRISPR RNA silencing complex Cmr2 subunit second helical domain › CRISPR RNA silencing complex Cmr2 subunit second helical domain 0.53 32.0 3.63e-01 71.5% 80.0%
3192679 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 35.0 3.07e-01 84.6% 46.6%
4038638 102.1.1.6 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › Methyltransf_5 0.52 43.0 4.34e-01 91.1% 100.0%
5008652 3447.1.1.2 ↗ alpha bundles › Isoprenylcysteine carboxyl methyltransferase (ICMT) › Isoprenylcysteine carboxyl methyltransferase (ICMT) › Isoprenylcysteine carboxyl methyltransferase (ICMT) › ICMT 0.51 37.0 3.67e-01 76.4% 93.8%