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NC_049340.1__YP_009873808.1__HYO65_gp124__00124

Bact-Vir

NC_049340.1__YP_009873808.1__HYO65_gp124__00124

Identity

Accession:
NC_049340 ↗
Kingdom:
phage

Quality

72.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Shirahamavirus› Tenacibaculum_phage_PTm1

TaxID: 2547425

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 9-79
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.66 53.0 4.11e-01 90.1% 99.4%
1wfoA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 52.0 4.62e-01 94.4% 62.5%
6x5vA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 48.0 4.43e-01 93.0% 64.6%
2qnuA00 3.40.1730.10 Alpha Beta › 3-Layer(aba) Sandwich › pa0076 fold › pa0076 domain 0.61 43.0 3.07e-01 73.2% 28.0%
1q5qH00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.60 50.0 3.64e-01 98.6% 41.5%
2k4rA00 2.40.20.10 Mainly Beta › Beta Barrel › Plasminogen Kringle 4 › Plasminogen Kringle 4 0.59 34.0 3.34e-01 98.6% 50.6%
3lqmA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 49.0 4.35e-01 93.0% 63.7%
7prrB01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.59 47.0 3.65e-01 90.1% 56.2%
6fnnB01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.57 48.0 3.93e-01 98.6% 84.0%
3beuA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.57 50.0 4.17e-01 100.0% 80.8%
6qm7A00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.56 45.0 3.26e-01 95.8% 37.7%
4zpjA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.55 49.0 3.73e-01 100.0% 93.0%
3jyuB01 3.30.2230.10 Alpha Beta › 2-Layer Sandwich › DUSP-like › DUSP-like 0.55 40.0 3.33e-01 77.5% 92.1%
3ednA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.55 44.0 3.68e-01 94.4% 49.3%
1x67A01 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.54 46.0 3.90e-01 100.0% 73.7%
4dloB01 4.10.1240.10 Few Secondary Structures › Irregular › Hormone receptor fold › GPCR, family 2, extracellular hormone receptor domain 0.54 39.0 4.05e-01 87.3% 83.3%
4lizA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.54 44.0 3.66e-01 95.8% 76.1%
2l72A00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.54 46.0 3.97e-01 100.0% 80.5%
3e0rA02 3.10.180.40 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › C3-degrading proteinase like domains 0.53 38.0 3.27e-01 77.5% 85.1%
3tvjB02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.52 45.0 4.00e-01 100.0% 77.6%
ECOD (21)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4681894 221.1.2.7 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif › RS4NT 0.66 45.0 3.88e-01 100.0% 45.5%
3595814 221.1.2.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif 0.66 45.0 3.86e-01 100.0% 45.5%
5048876 3986.2.1.0 ↗ a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.64 51.0 5.31e-01 94.4% 96.9%
2855566 223.1.1.51 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › MCP-like_PDC_1 0.62 48.0 3.69e-01 87.3% 50.0%
3321727 7.1.1.0 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain 0.62 46.0 4.70e-01 95.8% 82.9%
4944869 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.60 40.0 3.35e-01 74.6% 38.5%
3407173 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.58 52.0 3.54e-01 100.0% 40.8%
3501756 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.58 51.0 3.42e-01 100.0% 36.1%
3811908 4111.1.1.2 ↗ a+b two layers › AF0104/ALDC/Ptd012-like › AF0104/ALDC/Ptd012-like › AF0104/ALDC/Ptd012-like › PCC 0.58 45.0 3.73e-01 88.7% 60.0%
3768334 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.58 50.0 3.44e-01 100.0% 37.7%
3627415 224.1.1.1 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Cofilin_ADF 0.57 49.0 3.97e-01 100.0% 75.9%
4116245 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.56 49.0 3.46e-01 100.0% 43.3%
3843200 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.56 49.0 3.35e-01 100.0% 39.4%
3406956 224.1.1.1 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Cofilin_ADF 0.56 48.0 3.96e-01 100.0% 72.6%
5078886 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.55 49.0 4.26e-01 100.0% 66.4%
3879850 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.54 47.0 3.20e-01 100.0% 32.0%
3411403 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.54 47.0 3.22e-01 100.0% 33.3%
3326632 301.8.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › 4'-phosphopantetheinyl transferase › 4'-phosphopantetheinyl transferase › ACPS 0.54 40.0 3.70e-01 100.0% 61.1%
3888932 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.53 46.0 3.21e-01 100.0% 33.3%
3232285 213.1.1.57 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › BCCIP 0.51 43.0 3.15e-01 100.0% 70.0%
3266008 207.4.1.2 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › C-CAP/cofactor C-like › C-CAP/cofactor C-like › CAP_C 0.51 39.0 2.91e-01 87.3% 49.8%
D2 high residues 95-203
PDB
Domain cluster: representative
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1aluA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.62 45.0 3.96e-01 74.3% 89.2%
1c02A00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.59 43.0 3.77e-01 76.1% 77.7%
3ly7A02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.53 41.0 3.64e-01 96.3% 55.9%
2hxiB02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.52 37.0 3.46e-01 73.4% 96.3%
3kkbA00 1.20.120.880 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Histidine kinase (KinB), sensor domain 0.51 35.0 3.38e-01 88.1% 61.1%
6xy4A01 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.51 40.0 3.87e-01 84.4% 79.7%
4k0dA00 1.20.120.1730 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.50 36.0 3.34e-01 75.2% 72.0%
ECOD (11)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3243203 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.58 41.0 3.31e-01 72.5% 64.1%
3216453 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.58 42.0 3.41e-01 74.3% 66.8%
3212831 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.58 41.0 3.40e-01 73.4% 76.2%
3762384 601.16.1.9 ↗ alpha bundles › Four-helical up-and-down bundle › FAT domain of focal adhesion kinase › FAT domain of focal adhesion kinase › PF31076 0.56 40.0 3.70e-01 75.2% 84.8%
3725482 601.16.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › FAT domain of focal adhesion kinase › FAT domain of focal adhesion kinase 0.54 38.0 3.76e-01 75.2% 90.8%
3212808 3684.1.1.0 ↗ alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.53 38.0 3.47e-01 74.3% 78.0%
3230643 3684.1.1.0 ↗ alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.53 38.0 3.22e-01 74.3% 76.7%
3487768 601.16.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › FAT domain of focal adhesion kinase › FAT domain of focal adhesion kinase 0.52 37.0 3.46e-01 89.9% 57.9%
4243254 192.29.1.114 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Mitofilin 0.51 36.0 3.11e-01 74.3% 92.8%
3228529 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.50 36.0 3.27e-01 75.2% 92.7%
3228670 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.50 36.0 3.47e-01 76.1% 100.0%