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NC_005069.1__NP_892089.1__PY54p43__00044

Bact-Vir

NC_005069.1__NP_892089.1__PY54p43__00044

Identity

Accession:
NC_005069 ↗
Kingdom:
phage

Quality

82.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Yersinia_phage_PY54

TaxID: 172667

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 23-99
PDB
Domain cluster: rep: OQ830459.1__WNA13804.1__vBKpnSKpLi5_43__00043__D9-69
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1wv8A00 3.30.2390.10 Alpha Beta › 2-Layer Sandwich › TTHA1013/TTHA0281-like › TTHA1013-like 0.71 45.0 4.70e-01 71.4% 70.4%
3fogA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.62 49.0 4.51e-01 88.3% 100.0%
3rv0B03 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.60 43.0 4.27e-01 84.4% 73.4%
1pzxA03 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.59 40.0 3.46e-01 70.1% 49.2%
8aa0E01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.58 47.0 3.17e-01 89.6% 28.8%
1wiiA01 2.20.25.190 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.58 41.0 4.42e-01 96.1% 95.2%
2ltrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.57 42.0 3.87e-01 80.5% 73.3%
2ra8A01 2.20.140.10 Mainly Beta › Single Sheet › q64v53_bacfr protein fold › WGR domain 0.57 40.0 4.10e-01 74.0% 82.4%
1bxgA01 3.40.50.10860 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 0.57 46.0 3.84e-01 88.3% 81.5%
2ltsA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.57 41.0 3.99e-01 88.3% 68.6%
1st8A01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.56 45.0 3.03e-01 90.9% 30.3%
2fe0A01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.56 41.0 3.68e-01 77.9% 90.7%
2mdrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.55 42.0 4.01e-01 83.1% 71.3%
4hasA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.54 47.0 4.32e-01 100.0% 99.0%
1e8oA00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.54 37.0 3.77e-01 70.1% 78.4%
6fh1B01 3.30.590.10 Alpha Beta › 2-Layer Sandwich › Creatine Kinase; Chain A, domain 2 › Glutamine synthetase/guanido kinase, catalytic domain 0.53 39.0 2.85e-01 80.5% 94.4%
3facA00 2.170.150.70 Mainly Beta › Beta Complex › Metal Binding Protein, Guanine Nucleotide Exchange Factor; Chain A › 0.52 38.0 3.49e-01 80.5% 90.8%
5fgoA00 3.10.450.700 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 38.0 4.08e-01 85.7% 96.8%
2it9A00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.52 38.0 3.41e-01 81.8% 77.5%
2cayB00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 35.0 3.00e-01 70.1% 55.0%
2l2nA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 39.0 4.07e-01 88.3% 93.0%
4tyzA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 35.0 3.21e-01 71.4% 59.6%
3a0oA03 2.70.98.70 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.51 40.0 2.83e-01 88.3% 82.9%
1cd9D01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 37.0 3.33e-01 75.3% 81.3%
3g1jA00 2.30.30.350 Mainly Beta › Roll › SH3 type barrels. › mobile metagenome of vibrio cholerae. Integron cassette protein vch_cass4. 0.51 37.0 3.58e-01 77.9% 82.2%
6mavB02 2.40.50.120 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 42.0 4.05e-01 92.2% 79.3%
3kstA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.51 41.0 2.83e-01 90.9% 29.6%
6htnA01 2.120.10.70 Mainly Beta › 6 Propeller › Neuraminidase › Fucose-specific lectin 0.50 38.0 3.30e-01 87.0% 59.9%
1iz6A01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.50 33.0 3.50e-01 71.4% 76.8%
ECOD (32)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5015133 4100.1.1.9 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › DUF7387 0.72 43.0 4.77e-01 70.1% 76.7%
4992542 4100.1.1.3 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › HicB_lk_antitox 0.71 44.0 5.06e-01 72.7% 89.1%
4992374 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.70 44.0 4.74e-01 76.6% 75.4%
4966362 4100.1.1.3 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › HicB_lk_antitox 0.68 45.0 4.68e-01 81.8% 74.3%
4969162 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.68 41.0 4.52e-01 70.1% 76.7%
4929701 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.67 42.0 4.64e-01 71.4% 81.7%
3992505 109.3.1.2 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank,Ank_2 0.66 45.0 3.12e-01 70.1% 34.1%
3494433 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.63 49.0 4.17e-01 83.1% 95.2%
4024943 4351.1.1.0 ↗ alpha arrays › ATP12-like › ATP12-like › ATP12-like 0.62 49.0 3.53e-01 84.4% 32.7%
3515884 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 42.0 3.62e-01 70.1% 58.3%
2410020 881.1.1.4 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like › DcrB 0.61 45.0 3.66e-01 77.9% 41.9%
3947081 4210.1.1.0 ↗ a+b two layers › WGR domain › WGR domain › WGR domain 0.61 44.0 4.75e-01 77.9% 92.2%
3979087 4100.1.1.7 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › PF27115 0.60 42.0 4.34e-01 88.3% 80.0%
3825518 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.59 44.0 4.44e-01 87.0% 82.7%
4952930 2.21.1.0 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.59 35.0 3.40e-01 71.4% 52.9%
3496244 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.59 40.0 3.35e-01 71.4% 52.9%
10892 2007.1.6.3 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Aminoacid dehydrogenase-like, N-terminal domain › ELFV_dehydrog_N 0.58 46.0 3.77e-01 87.0% 80.4%
3515433 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.58 43.0 4.62e-01 83.1% 93.8%
3585833 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.57 43.0 3.85e-01 80.5% 74.5%
3510389 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.57 42.0 4.09e-01 80.5% 91.0%
3591979 77.2.1.1 ↗ beta meanders › open-sided beta-meander › Histone H3 K4-specific methyltransferase SET7/9-N › Histone H3 K4-specific methyltransferase SET7/9-N › MORN 0.57 44.0 3.56e-01 84.4% 57.4%
3503204 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.56 42.0 3.93e-01 85.7% 64.2%
4319496 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.56 42.0 4.36e-01 88.3% 91.4%
3923911 896.1.1.3 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › SRP9-21 0.55 38.0 3.86e-01 71.4% 77.3%
3519567 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 39.0 3.50e-01 75.3% 90.0%
3496732 5.1.4.139 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40_2 0.54 42.0 2.65e-01 89.6% 25.1%
3922240 3755.3.1.321 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › WHAMM-JMY_N 0.54 42.0 3.86e-01 89.6% 100.0%
3480250 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.52 38.0 3.70e-01 84.4% 68.9%
137372 5.1.2.8 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › Glyco_hydro_43 0.51 41.0 2.83e-01 90.9% 29.6%
3172630 4026.1.1.2 ↗ a+b three layers › a+b domain in Rap/Ran-GAP (Pfam 02145) › a+b domain in Rap/Ran-GAP (Pfam 02145) › a+b domain in Rap/Ran-GAP (Pfam 02145) › Bud3_N 0.51 41.0 3.12e-01 89.6% 41.6%
3784907 896.1.1.3 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › SRP9-21 0.51 37.0 3.61e-01 77.9% 76.5%
3185022 708.1.2.0 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like 0.50 37.0 3.02e-01 79.2% 85.6%