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MK005300.1__AYN56041.1__STG2_77__00077

Bact-Vir

MK005300.1__AYN56041.1__STG2_77__00077

Identity

Accession:
MK005300 ↗
Kingdom:
phage

Quality

73.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Demerecviridae› Epseptimavirus› Salmonella_phage_STG2

TaxID: 2480623

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 7-75
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2l8kA00 3.30.1330.220 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Arterivirus nonstructural protein 7 alpha 0.71 39.0 3.17e-01 100.0% 30.1%
3frhA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.70 40.0 2.91e-01 100.0% 21.9%
4m85C00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.66 37.0 2.68e-01 100.0% 20.2%
2pp6A02 2.40.10.210 Mainly Beta › Beta Barrel › Thrombin, subunit H › Phage tail proteins (gpFII-like) 0.63 39.0 4.09e-01 100.0% 68.3%
3ep6B01 3.30.360.50 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › S-adenosylmethionine decarboxylase 0.62 33.0 4.09e-01 94.2% 87.8%
2eqnA01 2.40.10.230 Mainly Beta › Beta Barrel › Thrombin, subunit H › Probable tRNA pseudouridine synthase domain 0.60 38.0 3.58e-01 100.0% 51.7%
3grzB00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 36.0 2.58e-01 100.0% 20.7%
5tvoB00 3.30.360.50 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › S-adenosylmethionine decarboxylase 0.60 32.0 3.49e-01 94.2% 61.0%
2nwaA01 2.40.240.20 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 0.59 39.0 3.87e-01 100.0% 64.0%
2f1lA01 2.40.30.60 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › RimM 0.57 39.0 3.60e-01 100.0% 55.1%
3kewB02 3.30.980.10 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › Threonyl-trna Synthetase; Chain A, domain 2 0.57 51.0 4.01e-01 100.0% 69.4%
3szeA01 2.40.10.120 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.57 43.0 2.79e-01 100.0% 18.2%
2z7rA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.56 33.0 3.16e-01 100.0% 48.8%
2zzeA03 2.40.30.130 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.56 38.0 3.40e-01 100.0% 50.0%
6f2mA02 2.40.30.290 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.55 37.0 3.46e-01 100.0% 55.2%
4ympA00 2.60.40.1850 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 32.0 2.76e-01 88.4% 33.9%
4p02A03 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.53 41.0 3.47e-01 100.0% 48.4%
2r6vA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.53 47.0 3.59e-01 100.0% 55.5%
1uscA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.53 47.0 3.49e-01 100.0% 50.0%
4evuB00 3.30.1660.10 Alpha Beta › 2-Layer Sandwich › Dodecin subunit-like › Flavin-binding protein dodecin 0.53 35.0 3.54e-01 100.0% 69.1%
1rz1A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.53 47.0 3.62e-01 100.0% 55.9%
4g6qA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.52 36.0 3.31e-01 100.0% 56.3%
6j7cA02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.51 44.0 3.44e-01 100.0% 98.8%
6r77A02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.51 45.0 3.43e-01 100.0% 98.8%
2clqA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.51 33.0 3.14e-01 100.0% 55.3%
2d37A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.51 44.0 3.46e-01 100.0% 55.5%
3uc4A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 34.0 3.21e-01 100.0% 57.6%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3815072 361.1.1.0 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain 0.72 49.0 5.49e-01 71.0% 92.7%
3318682 361.1.1.4 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DUF5351 0.72 48.0 4.97e-01 72.5% 72.3%
4048207 6012.1.1.0 ↗ few secondary structure elements › Antimicrobial peptide LCI › Antimicrobial peptide LCI › Antimicrobial peptide LCI 0.72 42.0 5.18e-01 100.0% 95.3%
3598708 361.1.1.0 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain 0.68 46.0 4.63e-01 72.5% 68.6%
3975275 1.1.13.15 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Gifsy-2 0.65 40.0 3.61e-01 100.0% 45.3%
None — 0.65 38.0 2.72e-01 100.0% 20.2%
4475713 2003.1.5.55 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PrmA 0.65 38.0 2.68e-01 100.0% 19.5%
4438073 304.18.1.0 ↗ a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS 0.64 41.0 3.84e-01 100.0% 54.2%
3601993 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.64 41.0 2.98e-01 100.0% 23.6%
3392978 304.9.1.95 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › DUF4780 0.63 42.0 4.08e-01 100.0% 60.0%
4040332 101.1.9.20 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › PhetRS_B1 0.63 43.0 4.05e-01 100.0% 60.0%
5075325 2003.1.5.66 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.63 38.0 2.82e-01 100.0% 24.0%
3719164 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.63 41.0 2.99e-01 100.0% 24.2%
4986893 328.5.1.1 ↗ a+b two layers › IF3-like › SirA-like › SirA-like › TusA 0.63 37.0 3.65e-01 100.0% 54.7%
None — 0.62 36.0 2.53e-01 100.0% 17.8%
3559843 361.1.1.5 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › GRXCR1_C 0.61 39.0 4.63e-01 85.5% 100.0%
4395520 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.61 41.0 3.76e-01 100.0% 51.6%
4024434 1.1.9.0 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.61 47.0 3.19e-01 100.0% 22.3%
4229140 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.61 44.0 4.03e-01 100.0% 58.9%
4655837 2003.1.5.55 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PrmA 0.60 35.0 2.54e-01 100.0% 19.5%
5071443 328.5.1.0 ↗ a+b two layers › IF3-like › SirA-like › SirA-like 0.60 36.0 3.36e-01 100.0% 48.2%
None — 0.60 35.0 2.51e-01 98.6% 20.0%
4063137 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.58 41.0 3.76e-01 100.0% 56.7%
4634180 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.58 42.0 3.86e-01 100.0% 58.9%
4203993 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.57 41.0 3.68e-01 100.0% 54.7%
3092435 361.1.1.12 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › BSD2_CRD 0.57 42.0 4.05e-01 78.3% 80.0%
4205951 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.57 39.0 3.60e-01 100.0% 53.7%
3255461 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.57 37.0 3.52e-01 100.0% 55.3%
3235643 304.166.1.1 ↗ a+b two layers › Alpha-beta plaits › Nup54 ferredoxin-like domain › Nup54 ferredoxin-like domain › DAG1 0.56 42.0 3.58e-01 100.0% 48.7%
4391995 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.56 38.0 3.61e-01 100.0% 57.6%
3426002 387.1.5.0 ↗ few secondary structure elements › omega toxin-like › omega toxin-related › Scorpion toxin-like 0.55 38.0 4.27e-01 100.0% 98.0%
4257012 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.55 40.0 3.60e-01 100.0% 54.0%
4030184 1.1.9.0 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.54 46.0 3.21e-01 100.0% 27.7%
4961968 286.1.1.4 ↗ a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Pro_racemase 0.54 48.0 3.54e-01 100.0% 89.4%
3945997 309.1.2.0 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › ThrRS/AlaRS editing domain 0.52 45.0 3.80e-01 100.0% 69.4%
3369437 1.1.9.5 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › LON_substr_bdg 0.52 43.0 2.96e-01 100.0% 26.0%
5012991 1.1.9.23 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › DUF473 0.50 43.0 3.66e-01 100.0% 58.3%