←Back to structures

NC_041929.1__YP_009601272.1__FDH46_gp331__00147

Bact-Vir

NC_041929.1__YP_009601272.1__FDH46_gp331__00147

Identity

Accession:
NC_041929 ↗
Kingdom:
phage

Quality

91.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Emdodecavirus› Sinorhizobium_phage_phiM7

TaxID: 1647403

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 3-61
PDB
Domain cluster: representative
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3hdtA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.81 55.0 3.87e-01 71.2% 25.6%
4fjqA01 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.77 57.0 3.43e-01 78.0% 18.7%
3rgcA01 1.10.4030.10 Mainly Alpha › Orthogonal Bundle › Triger factor/SurA peptide-binding fold › Porin chaperone SurA, peptide-binding domain 0.72 65.0 4.53e-01 96.6% 96.5%
1zymA02 1.10.274.10 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › PtsI, HPr-binding domain 0.72 62.0 4.93e-01 100.0% 48.4%
4ipeB02 3.30.230.80 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.62 54.0 3.95e-01 100.0% 44.8%
4pxoA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.61 48.0 3.81e-01 89.8% 61.1%
3ezqA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.61 50.0 4.13e-01 94.9% 89.6%
3um7A03 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 48.0 3.89e-01 83.1% 75.7%
4zo4A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.60 52.0 3.65e-01 100.0% 43.8%
3e3vA03 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 0.58 41.0 4.27e-01 93.2% 80.4%
5wp3B00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.58 49.0 4.10e-01 94.9% 77.5%
2of5H00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.57 47.0 4.14e-01 100.0% 64.0%
3b4qA00 1.10.1200.100 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › conserved protein domain from corynebacterium diphtheriae 0.57 49.0 4.36e-01 100.0% 79.3%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.56 46.0 4.37e-01 96.6% 79.7%
2o71A00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.55 45.0 4.05e-01 100.0% 67.0%
4u2vA02 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.54 39.0 3.65e-01 98.3% 58.7%
1wxpA01 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.53 43.0 4.00e-01 100.0% 73.8%
1fadA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.52 41.0 3.73e-01 100.0% 62.1%
3deeA01 1.10.150.690 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DUF2063 0.51 43.0 3.88e-01 100.0% 79.1%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3598688 109.1.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C 0.77 54.0 3.80e-01 72.9% 25.3%
4319059 103.5.1.2 ↗ alpha arrays › RuvA-C › post-HMGL domain-like › post-HMGL domain-like › DmpG_comm 0.77 54.0 5.28e-01 72.9% 71.4%
3387651 589.1.1.1 ↗ alpha arrays › Triger factor/SurA peptide-binding domain-like › Triger factor/SurA peptide-binding domain-like › Porin chaperone SurA, peptide-binding domain › SurA_N 0.73 66.0 4.68e-01 96.6% 96.9%
5067381 5065.1.1.3 ↗ alpha bundles › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › BPD_transp_2 0.69 57.0 3.66e-01 91.5% 62.1%
3219867 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.69 50.0 4.42e-01 83.1% 52.9%
5056432 607.1.1.0 ↗ 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 0.68 60.0 4.72e-01 100.0% 76.0%
3897457 101.1.2.360 ↗ alpha arrays › HTH › HTH › winged helix domain › Homeodomain 0.68 42.0 3.99e-01 72.9% 51.4%
3768463 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.67 42.0 4.24e-01 78.0% 61.7%
3881453 101.1.1.1 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Homeodomain 0.65 41.0 3.95e-01 78.0% 54.3%
3503552 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.61 55.0 4.15e-01 100.0% 79.1%
1068638 101.35.1.4 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.58 41.0 4.27e-01 93.2% 80.4%
3931563 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.57 43.0 4.31e-01 98.3% 81.7%
3930038 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.56 46.0 4.18e-01 100.0% 83.3%
3477224 110.1.1.1 ↗ alpha arrays › DEATH domain › DEATH domain › DEATH domain › Death 0.55 45.0 3.84e-01 100.0% 54.5%
3920322 110.1.1.1 ↗ alpha arrays › DEATH domain › DEATH domain › DEATH domain › Death 0.55 46.0 4.06e-01 100.0% 63.3%
3920607 110.1.1.1 ↗ alpha arrays › DEATH domain › DEATH domain › DEATH domain › Death 0.55 44.0 3.85e-01 100.0% 56.2%
3603133 3558.1.1.0 ↗ alpha arrays › HSDR subunit helical domain › HSDR subunit helical domain › HSDR subunit helical domain 0.54 46.0 3.89e-01 96.6% 86.0%