←Back to structures

NC_000935.1__NP_050999.1__APSE-1_38__00038

Bact-Vir

NC_000935.1__NP_050999.1__APSE-1_38__00038

Identity

Accession:
NC_000935 ↗
Kingdom:
phage

Quality

84.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Sendosyvirus› Hamiltonella_phage_APSE-1

TaxID: 2682836

Cluster

View cluster (138 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 33-104
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2kd1A00 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.84 59.0 4.96e-01 73.6% 48.3%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4575460 101.1.2.166 ↗ alpha arrays › HTH › HTH › winged helix domain › MCM6_C 0.57 40.0 3.47e-01 72.2% 72.7%
D2 medium residues 185-199_275-320
PDB
Domain cluster: representative
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7wntA02 3.10.20.580 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.59 43.0 4.02e-01 88.5% 62.8%
1f02T00 4.10.820.10 Few Secondary Structures › Irregular › Translocated Intimin Receptor; Chain T › Translocated intimin receptor, central domain 0.57 41.0 4.07e-01 78.7% 90.9%
4ht4A00 3.30.930.30 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › 0.53 43.0 3.05e-01 90.2% 98.5%
4krdB00 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.53 42.0 3.06e-01 91.8% 35.8%
5ejrA02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.53 32.0 2.87e-01 96.7% 41.9%
4jn3A01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.52 39.0 2.70e-01 80.3% 65.6%
1uwdA00 3.30.300.130 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › Fe-S cluster assembly (FSCA) 0.52 40.0 3.44e-01 85.2% 75.5%
3t7aA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.51 44.0 3.03e-01 95.1% 93.6%
1rsgA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 35.0 2.45e-01 73.8% 40.8%
6kzdA02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.51 42.0 3.11e-01 96.7% 88.3%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3945160 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.94 75.0 5.66e-01 83.6% 96.9%
3975981 5069.1.1.5 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › Cyt_bd_oxida_II 0.57 44.0 2.78e-01 86.9% 45.6%
4030181 148.1.3.17 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › MCM_lid 0.57 46.0 3.46e-01 93.4% 79.4%
4461056 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.56 42.0 3.72e-01 78.7% 78.8%
4339431 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.53 39.0 3.89e-01 78.7% 73.8%
3287709 304.7.1.0 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.53 43.0 4.24e-01 90.2% 84.6%
4486611 4354.1.1.1 ↗ a+b two layers › TRCF domain › TRCF domain › TRCF domain › TRCF 0.53 38.0 2.87e-01 77.0% 57.3%
3291096 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.52 38.0 4.00e-01 77.0% 92.7%
4861571 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.52 40.0 3.62e-01 88.5% 80.0%
3512361 101.1.2.137 ↗ alpha arrays › HTH › HTH › winged helix domain › OST-HTH 0.52 40.0 3.66e-01 96.7% 63.5%
3611776 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.51 38.0 3.01e-01 80.3% 46.4%
3488729 4964.1.1.2 ↗ alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › RNA_pol 0.51 38.0 2.75e-01 85.2% 58.6%
4975038 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.51 41.0 4.03e-01 90.2% 86.2%
3262387 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.51 27.0 2.42e-01 72.1% 36.4%
3517548 3409.1.1.0 ↗ a+b duplicates or obligate multimers › Vacuolar protein sorting-associated protein 30 BARA domain › Vacuolar protein sorting-associated protein 30 BARA domain › Vacuolar protein sorting-associated protein 30 BARA domain 0.51 41.0 3.25e-01 98.4% 94.7%
3271984 7015.1.1.0 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.51 43.0 3.32e-01 98.4% 82.1%
3589448 3227.1.1.1 ↗ alpha complex topology › phosphorylation-coupled saccharide transporter ChbC › phosphorylation-coupled saccharide transporter ChbC › phosphorylation-coupled saccharide transporter ChbC › PTS_EIIC 0.50 38.0 2.42e-01 88.5% 55.2%
3958346 205.1.1.20 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Fer4_15 0.50 27.0 3.12e-01 83.6% 71.1%