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NC_048085.1__YP_009814500.1__HOU40_gp113__00113

Bact-Vir

NC_048085.1__YP_009814500.1__HOU40_gp113__00113

Identity

Accession:
NC_048085 ↗
Kingdom:
phage

Quality

83.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Harbinvirus› Lactobacillus_phage_Bromius

TaxID: 2315485

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 2-86
PDB
Domain cluster: representative
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2pg4A00 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 50.0 4.94e-01 97.6% 95.6%
3cjnA00 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 0.55 49.0 4.09e-01 97.6% 57.5%
5e1wA00 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 0.55 49.0 3.90e-01 97.6% 73.2%
3cuqA03 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 0.55 41.0 4.21e-01 88.2% 83.7%
2rdpA00 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 0.51 46.0 3.87e-01 97.6% 73.6%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3946321 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.61 44.0 4.91e-01 94.1% 98.5%
5025922 101.1.2.150 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_45 0.59 48.0 5.02e-01 91.8% 92.5%
5058806 101.1.2.111 ↗ alpha arrays › HTH › HTH › winged helix domain › RQC 0.58 49.0 4.52e-01 92.9% 89.1%
5070584 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.57 49.0 4.89e-01 92.9% 90.0%
5049162 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.57 52.0 4.08e-01 98.8% 75.9%
4971296 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.57 46.0 4.71e-01 95.3% 91.3%
5040293 101.1.2.934 ↗ alpha arrays › HTH › HTH › winged helix domain › HVO_A0261_N 0.56 48.0 4.31e-01 96.5% 65.8%
2684 101.1.2.221 ↗ alpha arrays › HTH › HTH › winged helix domain › ArnR1-like_WHD 0.56 50.0 4.92e-01 97.6% 94.6%
5012277 101.1.2.904 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_38 0.56 46.0 4.88e-01 94.1% 100.0%
5028561 101.1.2.14 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.54 45.0 4.17e-01 96.5% 70.0%
5016733 101.1.2.14 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.54 47.0 4.28e-01 96.5% 72.7%
5047052 101.1.2.673 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_HVO_0163_N 0.54 47.0 3.77e-01 97.6% 60.7%
3721121 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 45.0 4.28e-01 96.5% 80.0%
3434870 101.1.2.386 ↗ alpha arrays › HTH › HTH › winged helix domain › WH_DRP 0.52 43.0 4.43e-01 91.8% 100.0%
3371334 101.1.2.137 ↗ alpha arrays › HTH › HTH › winged helix domain › OST-HTH 0.51 40.0 4.01e-01 87.1% 84.4%
3278292 101.1.2.136 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_20 0.50 41.0 3.97e-01 91.8% 78.9%
D2 high residues 93-141
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2l3nA00 1.10.1050.20 Mainly Alpha › Orthogonal Bundle › Ribosomal Protein S4 Delta 41; Chain A, domain 1 › 0.69 50.0 4.02e-01 100.0% 38.5%
1tr8A02 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.68 47.0 5.09e-01 95.9% 92.3%
1u8bA02 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.66 47.0 4.43e-01 77.6% 63.9%
1xb2B01 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.65 47.0 4.48e-01 100.0% 66.7%
2dzlA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.62 44.0 4.15e-01 100.0% 60.6%
1fadA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.62 49.0 4.04e-01 91.8% 80.0%
3e46A02 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.61 44.0 4.60e-01 100.0% 90.7%
2mh3A00 4.10.280.10 Few Secondary Structures › Irregular › MYOD Basic-Helix-Loop-Helix Domain, subunit B › Helix-loop-helix DNA-binding domain 0.61 42.0 3.83e-01 91.8% 51.4%
1nmrA01 1.10.1900.10 Mainly Alpha › Orthogonal Bundle › c-terminal domain of poly(a) binding protein › c-terminal domain of poly(a) binding protein 0.60 48.0 4.36e-01 100.0% 63.2%
2damA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.60 43.0 4.04e-01 100.0% 61.2%
6ifsB02 1.10.8.100 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › rRNA adenine dimethylase, C-terminal domain 0.60 50.0 4.54e-01 100.0% 74.6%
3of4A00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.58 44.0 2.95e-01 85.7% 25.6%
2of5H00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.57 42.0 3.48e-01 91.8% 42.0%
7kfuC02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.56 45.0 3.08e-01 100.0% 40.3%
2o71A00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.54 40.0 3.51e-01 98.0% 48.4%
2yqzA02 1.10.8.900 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.54 42.0 3.77e-01 100.0% 61.8%
2a6cA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.52 44.0 3.87e-01 98.0% 76.3%
1hr7C02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.50 36.0 2.39e-01 79.6% 60.4%
3cx5A02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.50 36.0 2.38e-01 75.5% 31.8%
5ucdA01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.50 40.0 2.69e-01 95.9% 36.2%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3368577 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.75 54.0 5.02e-01 100.0% 60.0%
4238947 304.8.1.65 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT, PF27446 0.71 60.0 3.81e-01 100.0% 19.2%
3243704 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.70 53.0 5.53e-01 100.0% 91.1%
4451107 304.8.1.53 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › GlnD_5th 0.69 57.0 4.03e-01 100.0% 28.8%
4447510 304.8.1.53 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › GlnD_5th 0.69 56.0 4.12e-01 100.0% 32.7%
3970739 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.69 56.0 4.06e-01 100.0% 30.6%
4447416 304.8.1.53 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › GlnD_5th 0.68 56.0 3.92e-01 100.0% 27.2%
3951251 305.1.1.7 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › GDH_ACT2 0.68 56.0 3.99e-01 100.0% 29.4%
4062262 304.8.1.65 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT, PF27446 0.68 55.0 4.04e-01 98.0% 32.0%
4490512 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.68 50.0 4.67e-01 100.0% 63.1%
4098064 304.8.1.65 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT, PF27446 0.68 56.0 3.92e-01 100.0% 28.0%
4473190 304.8.1.53 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › GlnD_5th 0.68 55.0 3.89e-01 100.0% 28.0%
3251568 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.67 49.0 5.11e-01 100.0% 86.7%
4340291 304.8.1.53 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › GlnD_5th 0.66 53.0 3.77e-01 100.0% 27.2%
3260073 103.1.1.1 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA 0.65 47.0 4.52e-01 100.0% 66.7%
4207508 103.1.1.84 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › PF28540 0.64 46.0 4.52e-01 100.0% 72.7%
3358659 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.63 45.0 4.84e-01 100.0% 95.0%
3272149 103.1.1.14 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_4 0.61 43.0 4.40e-01 100.0% 86.7%
4993602 632.23.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Helical linker domain in nicking endonuclease N.BspD6I › Helical linker domain in nicking endonuclease N.BspD6I 0.60 50.0 4.68e-01 98.0% 85.7%
3249342 103.1.1.22 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › ARI1_UBAl 0.59 43.0 4.12e-01 100.0% 65.0%
4981035 5058.1.1.16 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1 0.57 38.0 3.51e-01 71.4% 50.8%
3280014 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.52 42.0 2.65e-01 100.0% 15.8%
3930730 3615.1.1.24 ↗ alpha bundles › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain › CDK5RAP3 0.50 39.0 2.88e-01 87.8% 50.7%