←Back to structures

NC_048679.1__YP_009835553.1__HWB34_gp78__00078

Bact-Vir

NC_048679.1__YP_009835553.1__HWB34_gp78__00078

Identity

Accession:
NC_048679 ↗
Kingdom:
phage

Quality

88.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Nylescharonvirus› Leptospira_phage_LE4

TaxID: 2041383

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 6-83
PDB
Domain cluster: representative
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1nc7A00 2.60.290.11 Mainly Beta › Sandwich › Hypothetical Protein Tm1070; Chain: A › TM1070-like 0.65 40.0 3.45e-01 100.0% 42.2%
2pjyC00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.64 41.0 4.16e-01 100.0% 64.6%
3l5hA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.64 34.0 3.44e-01 100.0% 51.3%
7y8sB03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 34.0 3.35e-01 100.0% 48.8%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.62 42.0 4.14e-01 98.7% 65.9%
6gszA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 38.0 3.46e-01 100.0% 46.1%
3d0jA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 33.0 2.74e-01 100.0% 28.3%
4ksnA00 6.20.250.80 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.59 40.0 4.35e-01 100.0% 84.6%
1cnzA00 3.40.718.10 Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase 0.59 46.0 3.04e-01 87.2% 95.9%
1konA02 3.30.70.980 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › YebC, transcriptional regulation domain 0.58 35.0 3.44e-01 98.7% 51.1%
3buuB00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.58 52.0 3.75e-01 100.0% 82.3%
3dshA01 2.60.200.10 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.57 52.0 3.83e-01 100.0% 86.1%
2w9zA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.57 41.0 3.56e-01 78.2% 77.4%
4p04A01 2.60.40.3100 Mainly Beta › Sandwich › Immunoglobulin-like › Arylsulphate sulphotransferase monomer, N-terminal domain 0.56 34.0 3.18e-01 100.0% 45.3%
5hdwA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.55 38.0 3.21e-01 100.0% 42.0%
3ty4B00 3.40.718.10 Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase 0.55 40.0 2.67e-01 79.5% 76.8%
1xvsA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.54 37.0 3.20e-01 100.0% 44.7%
3bk2A03 3.10.20.580 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.54 44.0 4.08e-01 91.0% 84.8%
3mfiA04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.53 40.0 3.49e-01 100.0% 52.1%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.53 46.0 4.38e-01 98.7% 94.7%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.53 45.0 4.34e-01 97.4% 97.8%
1mzkA00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.53 46.0 4.00e-01 100.0% 94.3%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.52 46.0 3.65e-01 100.0% 93.4%
3gqsB00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.52 44.0 4.12e-01 98.7% 98.0%
3a21A03 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.51 32.0 3.03e-01 100.0% 49.5%
2nmlA00 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.50 40.0 3.73e-01 100.0% 69.0%
ECOD (30)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3285401 3986.2.1.0 ↗ a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.73 44.0 4.48e-01 100.0% 62.7%
5012895 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.68 43.0 5.00e-01 98.7% 90.9%
4939739 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.65 42.0 4.72e-01 98.7% 86.4%
4967222 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.63 41.0 4.60e-01 98.7% 85.0%
5015713 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.63 43.0 4.76e-01 100.0% 93.3%
5067865 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.63 41.0 4.29e-01 100.0% 74.3%
5065436 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.62 40.0 4.39e-01 98.7% 79.7%
3398797 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.60 38.0 3.32e-01 100.0% 43.5%
3975705 3115.6.1.0 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon 0.60 34.0 3.93e-01 98.7% 84.0%
3968122 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.59 34.0 4.03e-01 98.7% 95.6%
3705856 4121.1.1.1 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA 0.57 49.0 3.36e-01 98.7% 60.3%
4463006 3115.2.1.0 ↗ a+b two layers › GP2-like › GP2 › GP2 0.57 33.0 3.92e-01 97.4% 95.6%
3179489 216.1.1.4 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › RWD 0.56 44.0 3.75e-01 88.5% 67.1%
None — 0.56 43.0 4.06e-01 100.0% 68.4%
3218243 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.56 42.0 4.11e-01 98.7% 74.1%
4007508 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.54 33.0 3.80e-01 100.0% 94.0%
3923043 4326.1.1.1 ↗ a+b two layers › ERH-like › ERH-like › ERH-like › ER 0.54 44.0 4.10e-01 100.0% 70.0%
1710393 3068.2.1.1 ↗ a+b complex topology › Flagellar protein FlgA N-terminal domain-like › RNase J C-terminal domain › RNase J C-terminal domain › RNase_J_C 0.54 44.0 4.11e-01 91.0% 86.6%
4927303 525.1.1.1 ↗ a+b two layers › Urease, gamma-subunit › Urease, gamma-subunit › Urease, gamma-subunit › Urease_gamma 0.53 45.0 4.01e-01 100.0% 85.8%
5075622 12.3.1.18 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Glyco_hydr_116N 0.53 47.0 3.11e-01 100.0% 41.5%
3216210 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.53 32.0 3.65e-01 100.0% 94.0%
142897 866.1.1.3 ↗ a+b duplicates or obligate multimers › CheC-like › CheC-like › CheC-like › CheX 0.52 44.0 3.39e-01 100.0% 40.1%
3831039 109.4.1.1599 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase 0.52 44.0 2.64e-01 100.0% 11.2%
3480000 5001.1.1.5 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3 0.52 40.0 2.84e-01 88.5% 91.9%
4004704 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.51 30.0 3.40e-01 98.7% 93.3%
3969006 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.51 30.0 3.44e-01 98.7% 95.6%
5083886 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.51 43.0 3.50e-01 100.0% 95.8%
5013246 866.1.1.2 ↗ a+b duplicates or obligate multimers › CheC-like › CheC-like › CheC-like › CheC 0.51 44.0 3.33e-01 98.7% 42.0%
None — 0.50 42.0 3.29e-01 98.7% 46.3%
3414319 10.10.1.1 ↗ beta sandwiches › jelly-roll › Lipase/lipooxygenase domain (PLAT/LH2 domain) › Lipase/lipooxygenase domain (PLAT/LH2 domain) › PLAT 0.50 41.0 3.57e-01 89.7% 85.0%