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NC_054393.1__YP_010049749.1__KCH40_gp087__00080

Bact-Vir

NC_054393.1__YP_010049749.1__KCH40_gp087__00080

Identity

Accession:
NC_054393 ↗
Kingdom:
phage

Quality

75.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Typhavirus› Mycobacterium_phage_Typha

TaxID: 2517971

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 1-18_45-92
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1mgpA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.74 55.0 4.46e-01 78.8% 50.4%
2kvtA00 3.30.730.30 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › YaiA protein 0.72 53.0 5.20e-01 77.3% 78.9%
3nyiA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.71 54.0 4.28e-01 81.8% 52.6%
1pzxA03 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.70 55.0 4.43e-01 83.3% 95.1%
2l2nA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.69 51.0 4.98e-01 77.3% 76.1%
4a2bA03 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.68 51.0 4.58e-01 81.8% 63.2%
2l6mA00 3.30.160.400 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.67 52.0 4.52e-01 83.3% 67.3%
2g7zA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.67 50.0 4.14e-01 80.3% 54.2%
3pg7A02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.66 46.0 3.86e-01 87.9% 43.6%
2dlxA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.65 49.0 4.22e-01 84.8% 96.5%
3wt0A02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.65 47.0 3.57e-01 77.3% 76.2%
2g8kA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.64 47.0 3.82e-01 80.3% 47.1%
2l2mA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.64 46.0 4.58e-01 75.8% 75.7%
2b5eA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.64 48.0 4.01e-01 81.8% 85.7%
1v5mA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.63 49.0 3.85e-01 86.4% 40.4%
7ctpA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.63 46.0 3.82e-01 78.8% 57.5%
7d27A02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.62 46.0 3.22e-01 80.3% 23.9%
2xriA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.62 44.0 3.13e-01 75.8% 87.8%
2mdrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.62 49.0 4.36e-01 86.4% 61.7%
2ltrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.62 46.0 3.96e-01 80.3% 51.4%
5gmkn00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.61 42.0 2.70e-01 71.2% 29.1%
1nyeA00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.61 49.0 3.95e-01 92.4% 46.2%
4aezA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.60 44.0 2.82e-01 78.8% 29.4%
5ykwA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.60 43.0 3.75e-01 78.8% 92.5%
1whqA01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.59 44.0 4.33e-01 78.8% 77.5%
1wv8A00 3.30.2390.10 Alpha Beta › 2-Layer Sandwich › TTHA1013/TTHA0281-like › TTHA1013-like 0.59 43.0 4.27e-01 78.8% 73.2%
4lg8A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.58 41.0 2.67e-01 75.8% 30.0%
3hrgA02 3.30.420.260 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Protein of unknown function DUF3822, C-terminal domain 0.57 44.0 3.73e-01 84.8% 56.1%
4l9cA00 3.40.1000.30 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › 0.57 46.0 3.58e-01 90.9% 65.3%
3wxmB02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.57 44.0 3.52e-01 89.4% 44.3%
3hi0A02 3.30.420.150 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Exopolyphosphatase. Domain 2 0.57 44.0 3.23e-01 84.8% 42.1%
8gtyA02 3.30.420.150 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Exopolyphosphatase. Domain 2 0.56 41.0 3.12e-01 80.3% 90.2%
2hc5A01 3.30.160.170 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › FlaG-like 0.56 40.0 3.57e-01 75.8% 54.1%
1x5eA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 41.0 3.56e-01 81.8% 90.8%
3nuwA01 3.30.420.300 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 2-keto-3-deoxy-galactonokinase, substrate binding domain 0.55 40.0 3.66e-01 78.8% 63.3%
1dt9A02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.55 40.0 3.41e-01 78.8% 46.4%
2qi2A02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.55 39.0 3.29e-01 75.8% 46.5%
4u1eI00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.54 47.0 3.06e-01 100.0% 33.9%
3venA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.54 45.0 3.04e-01 89.4% 50.4%
3agkA02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.54 42.0 3.42e-01 84.8% 49.2%
3h27A00 3.50.50.100 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › 0.53 46.0 2.80e-01 93.9% 69.9%
3hrgA01 3.30.420.250 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Protein of unknown function DUF3822, N-terminal domain 0.53 37.0 2.94e-01 74.2% 39.2%
3gocA00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.52 40.0 2.86e-01 89.4% 25.4%
2ychA03 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 43.0 3.55e-01 92.4% 64.5%
4mtlA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 35.0 2.55e-01 71.2% 23.6%
3rv0B03 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 39.0 3.73e-01 86.4% 74.7%
1sz2B01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.51 36.0 3.04e-01 75.8% 98.3%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3870514 220.1.1.22 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › FERM_C 0.78 60.0 4.87e-01 87.9% 46.1%
2162577 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.78 58.0 4.55e-01 78.8% 52.2%
4488977 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.75 62.0 4.76e-01 87.9% 41.4%
3400449 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.75 57.0 4.13e-01 87.9% 30.3%
4186865 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.74 60.0 3.85e-01 87.9% 20.0%
4012071 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.74 60.0 3.63e-01 87.9% 14.4%
4202484 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.73 59.0 4.30e-01 87.9% 33.5%
4946414 301.13.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain 0.73 55.0 4.43e-01 80.3% 57.7%
4976249 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.72 49.0 4.02e-01 72.7% 40.0%
4121439 220.1.1.217 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH, GRAM 0.70 56.0 3.47e-01 87.9% 14.8%
4093535 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.69 54.0 4.28e-01 87.9% 42.3%
3479078 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.67 48.0 3.61e-01 75.8% 31.6%
4203238 220.1.1.217 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH, GRAM 0.67 50.0 3.35e-01 83.3% 20.8%
4447482 2484.1.1.11 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Ribosomal_L18p 0.66 48.0 4.04e-01 80.3% 64.2%
3299580 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.66 48.0 4.83e-01 75.8% 76.9%
3710329 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.65 53.0 4.45e-01 89.4% 52.7%
3915797 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.65 49.0 3.92e-01 83.3% 50.0%
4041226 2484.1.1.263 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA, EutA, FtsA 0.65 45.0 2.78e-01 72.7% 21.3%
3669022 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.65 48.0 4.27e-01 78.8% 57.9%
2771374 2484.5.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase 0.65 45.0 3.70e-01 72.7% 52.9%
3311789 2484.1.1.11 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Ribosomal_L18p 0.64 46.0 4.00e-01 77.3% 67.0%
4623194 2484.1.1.70 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FtsA 0.64 49.0 3.41e-01 83.3% 58.6%
3221700 2484.6.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Periplasmic domain of ExbD/TolR › Periplasmic domain of ExbD/TolR 0.64 43.0 3.26e-01 72.7% 28.7%
11180 2484.1.1.70 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FtsA 0.63 46.0 3.44e-01 80.3% 65.4%
3190113 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.63 45.0 2.93e-01 75.8% 34.1%
4569717 5.1.5.9 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › Cytochrom_D1 0.63 45.0 2.75e-01 77.3% 25.0%
3299579 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.63 50.0 4.96e-01 86.4% 84.3%
4386701 310.2.1.35 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › PF28954 0.63 48.0 3.63e-01 80.3% 87.6%
3213706 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.63 43.0 3.05e-01 78.8% 21.8%
3966577 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.62 45.0 3.40e-01 78.8% 62.4%
4467977 330.1.1.19 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DSRM_2 0.62 48.0 4.15e-01 84.8% 75.2%
3678841 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.62 49.0 4.54e-01 86.4% 68.2%
3494433 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.61 48.0 3.98e-01 87.9% 64.5%
3323400 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.61 43.0 3.55e-01 74.2% 46.7%
5002624 4100.1.1.3 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › HicB_lk_antitox 0.61 44.0 4.34e-01 83.3% 72.9%
4649238 2484.1.1.178 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA+FtsA 0.60 54.0 3.33e-01 100.0% 80.0%
4618205 604.1.1.150 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF28954 0.60 50.0 4.06e-01 89.4% 62.5%
3601126 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.59 40.0 2.45e-01 71.2% 41.6%
3695012 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.58 42.0 2.59e-01 77.3% 23.7%
3387142 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.58 44.0 3.27e-01 84.8% 36.8%
5076085 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.58 52.0 3.63e-01 100.0% 60.0%
3176989 601.19.1.40 ↗ alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein › PF28954 0.58 47.0 3.56e-01 89.4% 38.1%
3744704 5.1.4.173 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_WDR75_2nd 0.58 44.0 2.76e-01 83.3% 37.0%
3512065 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.58 43.0 4.42e-01 81.8% 81.5%
3577264 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.57 44.0 3.43e-01 84.8% 48.0%
4975908 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.57 45.0 3.14e-01 87.9% 25.9%
4316156 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.56 46.0 3.39e-01 87.9% 38.1%
4032204 2484.1.1.178 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA+FtsA 0.54 44.0 2.69e-01 87.9% 27.0%
4964669 2484.1.1.341 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Salactin 0.54 39.0 2.96e-01 81.8% 65.8%
3614205 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.53 38.0 3.01e-01 75.8% 65.0%
4608282 2484.1.1.70 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FtsA 0.52 42.0 2.58e-01 87.9% 26.2%
4977657 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 41.0 3.30e-01 92.4% 46.7%