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NC_009878.1__YP_001491686.1__Bethlehem_gp34__00035

Bact-Vir

NC_009878.1__YP_001491686.1__Bethlehem_gp34__00035

Identity

Accession:
NC_009878 ↗
Kingdom:
phage

Quality

76.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Fromanvirus› Mycobacterium_phage_Bethlehem

TaxID: 2902891

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 medium residues 35-97
PDB
Domain cluster: representative
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6lynD01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 39.0 3.51e-01 100.0% 46.0%
3demA03 2.60.120.290 Mainly Beta › Sandwich › Jelly Rolls › Spermadhesin, CUB domain 0.54 46.0 3.81e-01 95.2% 93.0%
2pokA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 44.0 3.35e-01 95.2% 80.0%
1rtzA00 3.30.70.560 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 7,8-Dihydro-6-hydroxymethylpterin-pyrophosphokinase HPPK 0.54 45.0 3.42e-01 100.0% 38.8%
3u6yA00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.53 47.0 4.07e-01 100.0% 70.7%
4uozA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.53 38.0 3.90e-01 100.0% 77.4%
2yxdA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 45.0 3.28e-01 100.0% 33.5%
1vq8R00 3.90.470.10 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › Ribosomal protein L22/L17 0.53 44.0 3.49e-01 100.0% 88.7%
7c51A01 3.30.70.2970 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Protein of unknown function (DUF541), domain 2 0.52 44.0 3.78e-01 100.0% 69.4%
1l3iA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.52 44.0 3.18e-01 100.0% 32.4%
2axwA01 2.60.40.1570 Mainly Beta › Sandwich › Immunoglobulin-like › Dr adhesin 0.52 42.0 3.51e-01 93.7% 99.2%
3v8uA01 2.40.128.250 Mainly Beta › Beta Barrel › Lipocalin › 0.51 40.0 3.26e-01 87.3% 72.1%
4kreA04 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.51 37.0 2.57e-01 82.5% 96.9%
7q6gA01 3.30.1490.110 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.50 41.0 3.96e-01 96.8% 98.7%
5xogC01 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.50 41.0 3.34e-01 96.8% 69.1%
3hm2A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 41.0 3.03e-01 100.0% 33.9%
3mb5A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 44.0 3.14e-01 100.0% 34.2%
5c0oH00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 44.0 3.07e-01 100.0% 42.2%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4187036 306.7.1.0 ↗ a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain 0.63 55.0 4.61e-01 98.4% 85.5%
2106280 218.2.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Ribosomal protein L22 › Ribosomal protein L22 › Ribosomal_L22 0.58 50.0 3.81e-01 98.4% 91.0%
4057698 218.2.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Ribosomal protein L22 › Ribosomal protein L22 › Ribosomal_L22 0.58 49.0 3.94e-01 96.8% 85.4%
4994692 304.44.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 0.58 49.0 4.17e-01 100.0% 66.4%
5028780 218.2.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Ribosomal protein L22 › Ribosomal protein L22 › Ribosomal_L22 0.58 48.0 3.72e-01 96.8% 89.7%
4210343 218.2.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Ribosomal protein L22 › Ribosomal protein L22 › Ribosomal_L22 0.57 48.0 4.08e-01 96.8% 100.0%
4927377 304.5.1.1 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › P-II 0.55 49.0 4.03e-01 100.0% 57.9%
991697 328.1.1.1 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like › Alba 0.53 47.0 4.07e-01 100.0% 70.7%
None — 0.53 45.0 3.11e-01 100.0% 34.4%
1903993 2003.1.5.179 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PF30636 0.53 45.0 3.28e-01 100.0% 33.3%
3764507 11.1.1.360 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › HYDIN_VesB_CFA65-like_Ig 0.53 42.0 3.53e-01 92.1% 79.2%
3267684 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.53 42.0 3.75e-01 100.0% 61.1%
4993382 242.1.1.7 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.52 44.0 3.90e-01 96.8% 63.2%
4950411 242.1.1.7 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.52 43.0 3.76e-01 96.8% 59.0%
3639075 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.52 44.0 3.65e-01 100.0% 52.2%
5035373 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 40.0 3.20e-01 88.9% 98.6%
3994571 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 44.0 3.31e-01 96.8% 46.3%
3394080 12.1.1.40 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › Glyc_hyd_38C_2 0.51 30.0 2.76e-01 73.0% 36.6%
3607974 11.1.1.360 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › HYDIN_VesB_CFA65-like_Ig 0.51 40.0 3.49e-01 90.5% 79.0%
3875343 11.1.1.360 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › HYDIN_VesB_CFA65-like_Ig 0.50 42.0 3.61e-01 96.8% 85.7%