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NC_049504.1__YP_009888327.1__HYQ34_gp005__00005

Bact-Vir

NC_049504.1__YP_009888327.1__HYQ34_gp005__00005

Identity

Accession:
NC_049504 ↗
Kingdom:
phage

Quality

77.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Ackermannviridae› Kuttervirus› Salmonella_phage_dinky

TaxID: 2713292

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 81-179
PDB
Domain cluster: rep: OV032902.1__CAH0447963.1__SM033_00139__00139__D168-264
D2 high residues 186-251
PDB
Domain cluster: rep: NC_048736.1__YP_009841899.1__HWB92_gp031__00031__D198-259
D3 high residues 498-552
PDB
Domain cluster: representative
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4oj5A02 2.10.10.80 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.83 76.0 6.97e-01 100.0% 81.7%
3k3pA01 3.40.50.20 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.60 51.0 4.16e-01 100.0% 63.1%
2v3jA01 3.40.1280.10 Alpha Beta › 3-Layer(aba) Sandwich › Alpha/beta knot › SPOUT methyltransferase, trefoil knot domain 0.57 46.0 3.31e-01 100.0% 55.6%
2pvpA01 3.40.50.20 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 48.0 3.85e-01 100.0% 55.5%
1e4eA03 3.40.50.20 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 48.0 3.85e-01 100.0% 51.7%
1iftA01 3.40.420.10 Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 0.55 43.0 3.16e-01 92.7% 94.3%
3ktzA01 3.40.420.10 Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 0.54 42.0 3.14e-01 92.7% 93.5%
3bg1B01 6.20.50.170 Special › Other non-globular › N-terminal domain of TfIIb › 0.54 31.0 3.24e-01 78.2% 57.1%
3ctkA01 3.40.420.10 Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 0.53 41.0 3.10e-01 92.7% 92.2%
1v1qA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 41.0 3.46e-01 92.7% 73.6%
1b69A00 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.51 37.0 3.51e-01 80.0% 82.6%
4o2tA00 3.10.50.40 Alpha Beta › Roll › Chitinase A; domain 3 › 0.51 43.0 3.14e-01 100.0% 69.0%
4mptA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 38.0 2.91e-01 98.2% 32.0%
ECOD (11)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3057047 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.67 58.0 5.43e-01 100.0% 91.4%
4362740 2003.1.10.2 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › PreATP-grasp domain › Dala_Dala_lig_N 0.63 53.0 4.04e-01 100.0% 57.2%
3419663 11.10.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like 0.60 44.0 3.52e-01 83.6% 94.4%
3241120 64.3.1.4 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › Tmp39 0.59 43.0 4.13e-01 90.9% 69.2%
3864111 12.5.1.1 ↗ beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5 0.58 49.0 3.75e-01 98.2% 82.9%
3391759 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.52 41.0 3.10e-01 100.0% 34.0%
3607725 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.52 39.0 2.45e-01 90.9% 22.5%
3741445 241.4.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Hypothetical protein c14orf129, hspc210 › Hypothetical protein c14orf129, hspc210 0.51 34.0 2.91e-01 94.5% 38.0%
None — 0.51 35.0 2.24e-01 90.9% 12.1%
3989371 1.1.9.20 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › PUA_4 0.51 43.0 4.13e-01 100.0% 100.0%
3955550 3761.1.1.0 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related 0.50 38.0 3.48e-01 100.0% 60.0%
D4 medium residues 265-331
PDB
Domain cluster: rep: NC_048757.1__YP_009844859.1__HWC13_gp050__00050__D47-115
D5 medium residues 415-493
PDB
Domain cluster: rep: MH719082.1__AXY86119.1__X__00064__D210-266
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF18668.7 best Tail_spike_N 89.4 1.70e-25 84.8% 98.6%
D6 medium residues 555-883
PDB
Domain cluster: rep: KR296692.1__AKJ73657.1__SP38_55__00055__D191-456
D7 medium residues 884-1072
PDB
Domain cluster: rep: MT074469.1__QIQ61682.1__rabagast_4__00004__D516-656
D8 medium residues 1073-1167
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3n2qA02 3.30.300.190 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.64 50.0 4.70e-01 84.2% 100.0%
3lbfA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 48.0 3.72e-01 86.3% 58.9%
1e88A03 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.60 28.0 3.80e-01 92.6% 97.6%
5bulA00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.57 42.0 2.81e-01 78.9% 49.0%
2vifA01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.56 37.0 3.40e-01 80.0% 50.8%
1c0pA02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.56 42.0 3.53e-01 78.9% 69.9%
3oz2A02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.56 41.0 3.54e-01 78.9% 64.4%
3otxB01 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.56 45.0 3.21e-01 86.3% 57.3%
3wirA03 2.60.420.10 Mainly Beta › Sandwich › Maltose phosphorylase, domain 3 › Maltose phosphorylase, domain 3 0.55 32.0 3.60e-01 70.5% 76.8%
2gk4A00 3.40.50.10300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › CoaB-like 0.55 45.0 3.44e-01 89.5% 59.4%
1euvA02 3.30.310.130 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Ubiquitin-related 0.55 39.0 3.85e-01 75.8% 93.3%
3rm5B01 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.55 44.0 3.12e-01 87.4% 53.6%
6w0pA02 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.55 44.0 2.89e-01 88.4% 98.4%
1xa6A01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.55 40.0 3.93e-01 87.4% 70.2%
2dx0A00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.55 40.0 3.69e-01 82.1% 61.5%
2hlzA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.54 49.0 3.46e-01 100.0% 46.6%
2ci9B00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.54 37.0 3.72e-01 80.0% 68.0%
3varA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.54 46.0 3.35e-01 100.0% 87.2%
1imvA01 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.53 38.0 3.19e-01 75.8% 95.3%
3iq0A00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.52 41.0 2.93e-01 86.3% 49.5%
2x1cB01 3.60.60.10 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › Penicillin V Acylase; Chain A 0.52 46.0 3.33e-01 100.0% 53.5%
3vasA01 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.52 46.0 3.32e-01 100.0% 64.5%
2rbcA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.51 45.0 3.22e-01 100.0% 42.5%
3ewmA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.51 41.0 2.89e-01 87.4% 50.0%
2kknA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.51 38.0 3.33e-01 82.1% 63.1%
5z1gB01 3.40.50.10480 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Brix domain 0.51 40.0 3.13e-01 90.5% 39.7%
2v8qB00 6.20.250.60 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.51 31.0 3.46e-01 84.2% 79.5%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3873763 391.1.2.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related 0.69 31.0 4.45e-01 91.6% 100.0%
4988784 2492.1.1.18 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › Prok-JAB 0.64 49.0 4.41e-01 83.2% 66.7%
4955882 2492.1.1.18 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › Prok-JAB 0.63 51.0 4.61e-01 87.4% 76.9%
3518153 214.1.1.10 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7145 0.59 38.0 3.67e-01 89.5% 56.4%
3502259 214.1.1.10 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7145 0.59 40.0 3.67e-01 89.5% 53.6%
3740898 5.1.4.169 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_RSE1_2nd 0.59 45.0 3.18e-01 82.1% 52.5%
3468735 4178.1.1.1 ↗ beta sandwiches › Putative glucosidase YicI, C-terminal domain › Putative glucosidase YicI, C-terminal domain › Putative glucosidase YicI, C-terminal domain › DUF5110 0.58 40.0 3.68e-01 72.6% 98.5%
3512462 214.1.1.10 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7145 0.58 37.0 3.46e-01 89.5% 51.7%
3508120 214.1.1.10 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7145 0.58 38.0 3.62e-01 84.2% 56.5%
3910972 391.1.1.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.57 35.0 4.19e-01 93.7% 95.0%
4942405 2003.1.3.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › DAO 0.57 42.0 2.79e-01 78.9% 50.9%
3801699 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.57 38.0 3.67e-01 82.1% 60.0%
4856205 1032.1.1.2 ↗ alpha arrays › Toxin A (TcdA) helical domain › Toxin A (TcdA) helical domain › Toxin A (TcdA) helical domain › TcdA_TcdB_pore, PF30720 0.57 48.0 3.80e-01 97.9% 62.3%
4449349 2003.1.5.141 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › EcoRI_methylase 0.55 44.0 3.06e-01 98.9% 26.9%
3509350 214.1.1.10 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7145 0.55 39.0 3.50e-01 84.2% 53.0%
4966044 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.55 40.0 2.78e-01 80.0% 53.1%
3337835 5.1.5.45 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › PROPPIN 0.54 41.0 3.25e-01 81.1% 76.5%
None — 0.54 43.0 3.47e-01 88.4% 67.7%
3714239 7026.1.1.0 ↗ beta meanders › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 0.53 48.0 3.71e-01 98.9% 67.1%
4272491 2003.1.5.213 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MTS, tRNA_U5-meth_tr 0.53 41.0 2.89e-01 86.3% 56.6%
3596952 7575.1.1.0 ↗ a/b three-layered sandwiches › Caspase-like › Caspase-like › Caspase-like 0.53 37.0 2.60e-01 90.5% 22.4%
3795991 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.52 39.0 3.81e-01 80.0% 71.4%
5001155 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.52 39.0 2.70e-01 80.0% 53.3%
3643107 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.52 45.0 3.03e-01 100.0% 59.3%
5055538 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.52 38.0 2.62e-01 78.9% 45.6%
3508548 5.1.4.169 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_RSE1_2nd 0.51 44.0 3.14e-01 100.0% 51.2%
3640752 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.51 44.0 3.30e-01 100.0% 46.2%
5048036 2004.1.1.162 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.51 40.0 3.06e-01 90.5% 81.5%
3855202 5.1.4.21 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Pep3_Vps18 0.51 40.0 2.76e-01 89.5% 40.8%
3418966 5.1.4.32 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Nucleoporin_N 0.51 43.0 2.83e-01 100.0% 51.8%
3557126 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.50 43.0 2.94e-01 100.0% 36.0%