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NC_047846.1__YP_009791879.1__HOR97_gp38__00038

Bact-Vir

NC_047846.1__YP_009791879.1__HOR97_gp38__00038

Identity

Accession:
NC_047846 ↗
Kingdom:
phage

Quality

92.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Autographivirales› Atuphduovirus› Agrobacterium_phage_Atu_ph03

TaxID: 2024262

Cluster

Singleton — not in a non-trivial cluster

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 2-91
PDB
Domain cluster: rep: KX669658.1__AOT25328.1__POA1180_20__00020__D2-16_36-115
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1n08A00 2.40.30.30 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Riboflavin kinase-like 0.52 44.0 3.76e-01 96.7% 90.3%
3gm8A04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 36.0 3.83e-01 82.2% 85.9%
4k7jA02 2.60.120.1360 Mainly Beta › Sandwich › Jelly Rolls › 0.50 39.0 3.53e-01 83.3% 99.2%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4976857 4333.1.1.0 ↗ a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain 0.57 49.0 3.73e-01 100.0% 83.8%
4401809 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.56 44.0 4.45e-01 84.4% 94.4%
3617006 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.55 43.0 4.09e-01 85.6% 86.4%
3840068 4333.1.1.0 ↗ a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain 0.54 46.0 3.79e-01 100.0% 74.1%
2855773 1.1.7.8 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Ribosomal_L35Ae 0.52 42.0 3.88e-01 90.0% 78.9%
4946101 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.51 39.0 3.76e-01 83.3% 93.3%
3063500 1.1.7.8 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Ribosomal_L35Ae 0.50 38.0 3.39e-01 83.3% 79.7%
4944696 1.1.7.138 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › NAD_binding_1 0.50 39.0 3.77e-01 83.3% 97.0%
D2 high residues 104-178
PDB
Domain cluster: rep: KM199771.1__AIK68528.1__Lo5R7ANS_58__00058__D55-134
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3b7hA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.65 54.0 5.43e-01 97.3% 92.1%
5zorA01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.62 40.0 4.13e-01 89.3% 68.5%
3dv9A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.62 44.0 4.54e-01 100.0% 81.4%
4heoA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.59 40.0 4.53e-01 81.3% 94.5%
4eekA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.59 41.0 4.37e-01 100.0% 84.8%
1uyvB02 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.54 40.0 2.73e-01 82.7% 21.0%
1f0jA00 1.10.1300.10 Mainly Alpha › Orthogonal Bundle › Catalytic domain of cyclic nucleotide phosphodiesterase 4b2b › 3'5'-cyclic nucleotide phosphodiesterase, catalytic domain 0.53 43.0 2.89e-01 94.7% 39.6%
2o71A00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.53 40.0 3.84e-01 100.0% 70.3%
5cvrA02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.53 37.0 3.58e-01 89.3% 65.5%
2hoqA02 1.10.150.520 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.53 41.0 4.14e-01 100.0% 84.8%
2vmaA00 1.20.81.30 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › Type II secretion system (T2SS), domain F 0.52 41.0 3.58e-01 89.3% 54.9%
1x2lA01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.51 38.0 3.74e-01 82.7% 76.5%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3646336 143.2.1.1 ↗ alpha arrays › PABP domain-like › Ribosomal protein L20 › Ribosomal protein L20 › Ribosomal_L20 0.65 44.0 4.75e-01 81.3% 86.7%
3920322 110.1.1.1 ↗ alpha arrays › DEATH domain › DEATH domain › DEATH domain › Death 0.62 45.0 4.25e-01 100.0% 63.3%
4929552 601.18.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Oxygen-evolving enhancer protein 3 › Oxygen-evolving enhancer protein 3 0.60 44.0 3.86e-01 78.7% 69.6%
3512080 1113.1.1.1 ↗ alpha arrays › Protein of Unknown Function YPO2564 › Protein of Unknown Function YPO2564 › Protein of Unknown Function YPO2564 › DUF1198 0.59 51.0 4.77e-01 100.0% 80.0%
3789482 102.1.2.1 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › DNA-glycosylase › HhH-GPD 0.55 47.0 3.33e-01 100.0% 29.4%
3998879 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.53 40.0 3.48e-01 81.3% 79.2%
3483338 110.1.1.0 ↗ alpha arrays › DEATH domain › DEATH domain › DEATH domain 0.52 44.0 4.00e-01 100.0% 89.5%
3808054 148.1.3.205 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_At3g28540 0.51 31.0 3.13e-01 97.3% 58.7%
3688033 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.50 44.0 3.36e-01 100.0% 67.2%