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MZ092003.1__QVQ56262.1__X__00110

Bact-Vir

MZ092003.1__QVQ56262.1__X__00110

Identity

Accession:
MZ092003 ↗
Kingdom:
phage

Quality

89.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Paenibacillus_phage_Pd_22F

TaxID: 2836077

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 4-145
PDB
Domain cluster: rep: LR990834.1__CAD7757509.1__ATHO_20__00020__D167-317
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01551.30 best Peptidase_M23 86.0 2.20e-24 71.8% 94.8%
D2 high residues 312-399
PDB
Domain cluster: representative
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF07833.17 best Cu_amine_oxidN1 31.7 1.70e-07 54.5% 42.6%
PF07833.17 Cu_amine_oxidN1 25.4 1.60e-05 45.5% 31.5%
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4i1kA00 2.40.330.10 Mainly Beta › Beta Barrel › At1g16640 B3 domain › DNA-binding pseudobarrel domain 0.67 44.0 4.02e-01 100.0% 50.0%
4b0eD00 3.10.20.410 Alpha Beta › Roll › Ubiquitin-like (UB roll) › PapC, N-terminal domain 0.65 52.0 5.05e-01 100.0% 77.0%
1yelA00 2.40.330.10 Mainly Beta › Beta Barrel › At1g16640 B3 domain › DNA-binding pseudobarrel domain 0.64 41.0 3.93e-01 100.0% 55.9%
1mhxA00 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.63 39.0 4.41e-01 100.0% 83.1%
1hezE00 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.63 40.0 4.72e-01 100.0% 93.4%
1ze3D00 3.10.20.410 Alpha Beta › Roll › Ubiquitin-like (UB roll) › PapC, N-terminal domain 0.63 52.0 4.80e-01 100.0% 69.8%
1zxhA00 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.63 38.0 4.62e-01 100.0% 96.4%
1j5wB01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.62 49.0 3.84e-01 87.5% 91.5%
7lhgC01 3.10.20.410 Alpha Beta › Roll › Ubiquitin-like (UB roll) › PapC, N-terminal domain 0.57 51.0 4.90e-01 100.0% 86.3%
2de6A02 2.20.25.680 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.54 33.0 3.92e-01 94.3% 93.1%
3ge2A00 2.40.128.50 Mainly Beta › Beta Barrel › Lipocalin › 0.53 40.0 3.99e-01 86.4% 77.5%
1b5fB00 2.40.70.10 Mainly Beta › Beta Barrel › Cathepsin D, subunit A; domain 1 › Acid Proteases 0.53 37.0 3.72e-01 72.7% 78.2%
1wxcB01 3.30.1880.10 Alpha Beta › 2-Layer Sandwich › protein ne1242 fold › protein ne1242 domain like 0.51 34.0 3.78e-01 85.2% 96.8%
3vlaA02 2.40.70.10 Mainly Beta › Beta Barrel › Cathepsin D, subunit A; domain 1 › Acid Proteases 0.51 43.0 3.28e-01 95.5% 86.6%
1kzlA02 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.50 37.0 3.58e-01 87.5% 69.3%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4580534 241.3.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › N domain of copper amine oxidase › N domain of copper amine oxidase › Cu_amine_oxidN1 0.83 76.0 7.00e-01 98.9% 100.0%
4032345 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.77 63.0 6.63e-01 96.6% 98.7%
4946074 4961.1.1.1 ↗ a+b complex topology › inserted a+b domain in yeast RNA polymerase beta subunit › inserted a+b domain in yeast RNA polymerase beta subunit › inserted a+b domain in yeast RNA polymerase beta subunit › RNA_pol_Rpb2_4 0.73 42.0 4.04e-01 100.0% 51.0%
4942023 4961.1.1.1 ↗ a+b complex topology › inserted a+b domain in yeast RNA polymerase beta subunit › inserted a+b domain in yeast RNA polymerase beta subunit › inserted a+b domain in yeast RNA polymerase beta subunit › RNA_pol_Rpb2_4 0.72 42.0 5.20e-01 100.0% 92.7%
3637895 4961.1.1.1 ↗ a+b complex topology › inserted a+b domain in yeast RNA polymerase beta subunit › inserted a+b domain in yeast RNA polymerase beta subunit › inserted a+b domain in yeast RNA polymerase beta subunit › RNA_pol_Rpb2_4 0.71 41.0 4.03e-01 100.0% 53.7%
3307392 1.1.11.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 0.69 44.0 4.06e-01 100.0% 50.0%
3971792 4212.1.1.0 ↗ beta barrels › FimD N-terminal domain-like › FimD N-terminal domain-like › FimD N-terminal domain-like 0.69 50.0 5.26e-01 100.0% 85.0%
3804424 1.1.11.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 0.68 44.0 3.97e-01 100.0% 48.3%
3353150 1.1.11.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 0.68 43.0 4.26e-01 100.0% 60.6%
3341535 1.1.11.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 0.67 43.0 4.23e-01 100.0% 60.6%
4194302 4212.1.1.1 ↗ beta barrels › FimD N-terminal domain-like › FimD N-terminal domain-like › FimD N-terminal domain-like › PapC_N 0.67 55.0 4.95e-01 100.0% 65.8%
3647873 1.1.11.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 0.66 43.0 4.06e-01 100.0% 55.2%
3452758 1.1.11.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 0.66 43.0 4.26e-01 100.0% 62.1%
3428887 1.1.11.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 0.66 42.0 4.14e-01 100.0% 60.6%
5006277 211.1.1.0 ↗ a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.65 30.0 3.83e-01 92.0% 75.5%
3320363 1.1.11.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 0.64 41.0 4.12e-01 100.0% 63.3%
209 1.1.11.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 0.64 41.0 3.93e-01 100.0% 55.9%
3979412 4212.1.1.1 ↗ beta barrels › FimD N-terminal domain-like › FimD N-terminal domain-like › FimD N-terminal domain-like › PapC_N 0.63 51.0 5.01e-01 100.0% 82.1%
3604611 3070.1.1.0 ↗ a+b complex topology › N0 domain in phage tail proteins and secretins-like › N0 domain in phage tail proteins and secretins › N0 domain in phage tail proteins and secretins 0.63 36.0 3.66e-01 100.0% 56.7%
3980689 4212.1.1.1 ↗ beta barrels › FimD N-terminal domain-like › FimD N-terminal domain-like › FimD N-terminal domain-like › PapC_N 0.61 52.0 4.64e-01 100.0% 66.4%
3968414 4212.1.1.1 ↗ beta barrels › FimD N-terminal domain-like › FimD N-terminal domain-like › FimD N-terminal domain-like › PapC_N 0.60 52.0 4.90e-01 100.0% 78.2%
3947553 4212.1.1.1 ↗ beta barrels › FimD N-terminal domain-like › FimD N-terminal domain-like › FimD N-terminal domain-like › PapC_N 0.59 50.0 4.54e-01 100.0% 69.2%
3318672 1.1.11.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 0.56 36.0 3.35e-01 100.0% 52.3%
3175153 1.1.1.19 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease › Pol_BBD 0.55 44.0 3.91e-01 86.4% 99.2%
2429369 223.3.1.3 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Transpeptidase 0.54 22.0 3.18e-01 100.0% 81.4%
3576759 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.53 38.0 4.26e-01 76.1% 95.7%
D3 medium residues 237-290
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01832.26 best Glucosaminidase 39.9 8.80e-10 100.0% 37.4%
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2zycA01 1.10.530.10 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.89 76.0 5.97e-01 100.0% 47.2%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3590542 235.1.1.10 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Glucosaminidase 0.98 93.0 6.33e-01 100.0% 34.4%
4520768 235.1.1.10 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Glucosaminidase 0.96 91.0 6.12e-01 100.0% 32.5%
2120646 235.1.1.10 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Glucosaminidase 0.88 81.0 5.29e-01 100.0% 27.2%