←Back to structures

NC_009815.1__YP_001468895.1__LiPA006_gp55__00055

Bact-Vir

NC_009815.1__YP_001468895.1__LiPA006_gp55__00055

Identity

Accession:
NC_009815 ↗
Kingdom:
phage

Quality

88.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Listeria_phage_A006

TaxID: 330399

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 3-45
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF28074.1 best BH0509 44.7 1.40e-11 95.3% 90.7%
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2mh3A00 4.10.280.10 Few Secondary Structures › Irregular › MYOD Basic-Helix-Loop-Helix Domain, subunit B › Helix-loop-helix DNA-binding domain 0.77 64.0 5.62e-01 100.0% 61.4%
1wj7A01 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.74 56.0 5.05e-01 83.7% 63.3%
2dzlA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.69 52.0 4.58e-01 83.7% 57.6%
1xb2B01 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.69 53.0 4.80e-01 86.0% 61.7%
1zv1A00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.68 51.0 4.69e-01 83.7% 69.5%
1musA01 1.10.246.40 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › Tn5 transposase; domain 1 0.68 44.0 3.80e-01 86.0% 42.4%
1nvmA02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.67 50.0 4.47e-01 83.7% 67.2%
1a5tA02 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.67 48.0 4.95e-01 79.1% 92.5%
2n50A00 1.10.1200.10 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like 0.67 53.0 4.36e-01 100.0% 48.1%
2l4eA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.66 49.0 4.56e-01 83.7% 66.7%
1v92A00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.63 46.0 4.60e-01 86.0% 80.4%
4qclA03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.61 51.0 3.19e-01 100.0% 37.3%
2a2mA00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.60 50.0 3.23e-01 100.0% 85.3%
1zq3P00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.59 45.0 3.89e-01 83.7% 63.2%
7o49B01 3.30.70.2110 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 45.0 3.70e-01 90.7% 68.1%
6jqsA00 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 0.56 45.0 3.88e-01 88.4% 56.7%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3400498 105.1.1.1 ↗ alpha duplicates or obligate multimers › HLH-like › HLH, helix-loop-helix DNA-binding domain › HLH, helix-loop-helix DNA-binding domain › HLH 0.92 83.0 5.87e-01 100.0% 35.8%
3794323 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.91 81.0 8.01e-01 97.7% 95.6%
4220399 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.81 67.0 6.44e-01 97.7% 82.0%
3930564 109.4.1.89 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Drf_FH3,Drf_GBD 0.74 63.0 3.68e-01 100.0% 11.9%
3749044 103.1.1.14 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_4 0.73 55.0 4.98e-01 83.7% 63.3%
3608656 103.1.1.14 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_4 0.72 55.0 5.51e-01 83.7% 88.4%
3789667 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.71 54.0 5.34e-01 83.7% 84.4%
4025664 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.71 54.0 5.16e-01 83.7% 72.0%
3233327 103.1.1.143 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_ARIH2_N 0.70 56.0 5.02e-01 88.4% 63.3%
3818970 103.1.1.14 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_4 0.70 51.0 4.88e-01 79.1% 72.0%
163972 103.1.1.28 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_8 0.69 52.0 4.58e-01 83.7% 57.6%
3392055 103.1.1.143 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_ARIH2_N 0.69 54.0 4.92e-01 88.4% 63.3%
3591175 103.1.1.22 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › ARI1_UBAl 0.68 54.0 4.72e-01 88.4% 58.5%
3621722 103.1.1.14 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_4 0.68 53.0 5.23e-01 86.0% 86.7%
2700982 103.1.1.22 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › ARI1_UBAl 0.67 50.0 4.45e-01 86.0% 55.2%
3367165 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.66 53.0 4.86e-01 93.0% 70.0%
3797773 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.66 47.0 2.90e-01 90.7% 11.9%
5025208 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.63 47.0 3.02e-01 97.7% 16.1%
3022565 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.61 46.0 4.71e-01 86.0% 95.1%
1790898 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.60 50.0 3.12e-01 100.0% 37.3%