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NC_042344.1__YP_009639061.1__FGG50_gp05__00005

Bact-Vir

NC_042344.1__YP_009639061.1__FGG50_gp05__00005

Identity

Accession:
NC_042344 ↗
Kingdom:
phage

Quality

97.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Casjensviridae› Sanovirus› Xylella_phage_Sano

TaxID: 1415148

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 4-46
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5ja1B00 3.90.820.10 Alpha Beta › Alpha-Beta Complex › Rubredoxin-like › Structural Genomics, Unknown Function 30-nov-00 1gh9 Mol_id 0.72 56.0 4.86e-01 86.0% 71.2%
4gr5C01 3.90.820.10 Alpha Beta › Alpha-Beta Complex › Rubredoxin-like › Structural Genomics, Unknown Function 30-nov-00 1gh9 Mol_id 0.71 57.0 4.96e-01 88.4% 76.6%
4lizA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.70 55.0 3.98e-01 100.0% 29.0%
2pstX00 3.90.820.10 Alpha Beta › Alpha-Beta Complex › Rubredoxin-like › Structural Genomics, Unknown Function 30-nov-00 1gh9 Mol_id 0.67 53.0 4.78e-01 88.4% 80.3%
1d0nA06 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.66 50.0 3.65e-01 100.0% 29.1%
2xf1A00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.64 51.0 3.89e-01 100.0% 35.2%
2i44B00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.64 44.0 2.64e-01 72.1% 97.5%
7npaA02 3.30.70.3340 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 50.0 4.17e-01 97.7% 78.8%
2ol5A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.62 48.0 3.18e-01 83.7% 96.2%
6scxC01 3.90.79.20 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › 0.61 49.0 3.43e-01 100.0% 45.3%
1m0wA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.61 48.0 3.72e-01 100.0% 38.0%
2lxxA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.60 47.0 3.44e-01 100.0% 31.6%
1h0hB01 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 48.0 3.47e-01 100.0% 88.0%
7bjkA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.59 43.0 3.38e-01 86.0% 64.6%
1xreA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.58 42.0 3.29e-01 86.0% 63.4%
3g1nA02 3.30.2160.10 Alpha Beta › 2-Layer Sandwich › Hect, E3 ligase catalytic domain › Hect, E3 ligase catalytic domain 0.58 43.0 3.72e-01 90.7% 55.0%
3ddcB00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.57 44.0 3.25e-01 100.0% 30.1%
6l4lA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.55 49.0 3.55e-01 100.0% 100.0%
1stzA03 3.30.390.60 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Heat-inducible transcription repressor hrca homolog; domain 3 0.55 42.0 3.44e-01 88.4% 52.8%
2memA00 3.90.1150.190 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › SLED domain 0.55 44.0 3.37e-01 100.0% 91.6%
2vugA03 3.30.470.30 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme 0.54 49.0 3.59e-01 97.7% 50.0%
6julA02 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.54 42.0 3.51e-01 100.0% 58.3%
2eixA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.54 47.0 3.59e-01 100.0% 57.5%
1ty0B01 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.54 46.0 3.31e-01 100.0% 76.5%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.54 44.0 3.08e-01 100.0% 29.9%
2vf9A00 3.30.380.10 Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein 0.54 40.0 2.95e-01 83.7% 43.5%
3sftA00 3.40.50.180 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Methylesterase CheB, C-terminal domain 0.53 41.0 2.76e-01 90.7% 20.1%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.53 40.0 3.40e-01 97.7% 91.5%
4rckA00 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.52 43.0 2.85e-01 97.7% 23.5%
4iv9A03 1.10.405.40 Mainly Alpha › Orthogonal Bundle › Guanine Nucleotide Dissociation Inhibitor; domain 1 › 0.52 41.0 2.93e-01 93.0% 60.4%
1xeaA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.52 36.0 2.47e-01 74.4% 16.7%
4llgM00 3.10.20.510 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNA polymerase inhibitor 0.52 42.0 4.11e-01 97.7% 94.0%
2xrfC00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.52 38.0 2.42e-01 83.7% 22.7%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.52 39.0 3.32e-01 100.0% 54.3%
2czrA02 3.90.79.30 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › TBP-interacting protein, C-terminal domain 0.51 44.0 3.19e-01 97.7% 65.0%
1aq3A00 3.30.380.10 Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein 0.51 37.0 2.81e-01 81.4% 44.2%
2cveA02 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 40.0 3.64e-01 97.7% 93.9%
3uuwB02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.51 36.0 2.48e-01 72.1% 16.8%
1i24A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.51 41.0 2.59e-01 93.0% 50.4%
2z5bB01 3.30.230.90 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.51 36.0 2.85e-01 86.0% 43.7%
3bf5A01 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.50 36.0 2.47e-01 90.7% 22.3%
1xf1A05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 42.0 3.33e-01 100.0% 50.5%
2hv2A01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.50 34.0 2.74e-01 81.4% 33.7%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3223140 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.69 53.0 3.95e-01 90.7% 31.7%
3879076 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.67 57.0 4.73e-01 100.0% 92.5%
4950136 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.65 49.0 4.14e-01 100.0% 48.0%
3979711 252.2.1.6 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › Arm-DNA-bind_2 0.65 47.0 4.23e-01 90.7% 53.8%
3291463 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.63 47.0 3.15e-01 83.7% 40.5%
4930449 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.62 45.0 3.84e-01 100.0% 46.7%
4943183 247.1.1.0 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase 0.61 54.0 3.25e-01 100.0% 24.6%
3420078 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.61 44.0 2.47e-01 81.4% 35.4%
5038360 2006.1.1.11 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase_3 0.60 45.0 2.89e-01 88.4% 44.9%
5049149 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.59 44.0 3.76e-01 100.0% 49.3%
3568614 304.102.1.1 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 0.59 42.0 2.60e-01 100.0% 11.7%
3378740 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.57 41.0 2.24e-01 81.4% 48.9%
3604592 2008.1.1.15 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › HSDR_N 0.57 42.0 2.93e-01 86.0% 60.6%
3218957 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.56 45.0 3.44e-01 100.0% 36.5%
5017089 206.1.3.23 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase 0.56 43.0 2.85e-01 100.0% 60.8%
3783500 1.1.7.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.55 49.0 3.44e-01 100.0% 45.9%
3704468 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.54 49.0 3.57e-01 100.0% 42.7%
3488019 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.54 48.0 3.33e-01 100.0% 37.5%
3446121 109.4.1.3478 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, DYW_deaminase, Eplus_motif, E_motif, TPR_24 0.54 46.0 2.56e-01 100.0% 13.5%
3964139 11.1.5.16 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › PCuAC 0.54 43.0 3.09e-01 100.0% 29.3%
3646564 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.53 43.0 2.41e-01 90.7% 8.0%
3398485 3939.1.1.16 ↗ alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › Ax_dynein_light 0.53 37.0 2.47e-01 74.4% 49.2%
4939739 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.53 42.0 3.97e-01 100.0% 88.1%
4207793 3054.1.1.0 ↗ alpha arrays › Insert all-alpha domain in prim-pol › Insert all-alpha domain in prim-pol › Insert all-alpha domain in prim-pol 0.53 40.0 3.35e-01 86.0% 62.5%
4995671 3115.1.1.12 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › PF30567 0.53 38.0 3.80e-01 100.0% 80.0%
3679750 109.4.1.2666 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Ank, PPR, Ank_2, PPR_1, Ank_5, E_motif 0.52 42.0 2.30e-01 90.7% 5.4%
3453217 109.4.1.1272 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, E_motif 0.52 42.0 2.47e-01 90.7% 12.5%
3823029 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.52 45.0 2.45e-01 97.7% 9.5%
3804154 109.4.1.1383 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, Eplus_motif, E_motif 0.52 45.0 2.66e-01 97.7% 19.7%
3246576 304.102.1.0 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase 0.52 40.0 2.46e-01 88.4% 39.3%
3825377 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.52 42.0 2.31e-01 90.7% 6.2%
3369937 109.4.1.1285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif 0.52 44.0 2.42e-01 97.7% 9.5%
3325708 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.52 41.0 2.50e-01 90.7% 15.0%
4935046 2004.1.1.97 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MobB 0.52 41.0 2.96e-01 90.7% 70.8%
3390562 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.52 42.0 3.70e-01 100.0% 60.0%
3352831 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.52 44.0 2.54e-01 97.7% 17.0%
3668229 109.4.1.1272 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, E_motif 0.52 43.0 2.57e-01 97.7% 18.6%
3677029 109.4.1.1985 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, Eplus_motif, E_motif 0.51 43.0 2.67e-01 97.7% 25.3%
3322667 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.51 43.0 2.32e-01 97.7% 6.9%
5043001 101.1.2.135 ↗ alpha arrays › HTH › HTH › winged helix domain › MarR_2 0.51 42.0 3.18e-01 90.7% 51.4%
3810327 109.4.1.883 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR+PPR_2 0.51 43.0 2.35e-01 97.7% 9.0%
3680994 109.4.1.1269 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, E_motif 0.51 42.0 2.53e-01 97.7% 19.0%
3829568 109.4.1.1383 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, Eplus_motif, E_motif 0.51 42.0 2.37e-01 97.7% 10.6%
3423625 109.4.1.1371 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, Eplus_motif, E_motif 0.51 42.0 2.36e-01 97.7% 11.4%
3806349 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.50 42.0 2.39e-01 97.7% 12.5%
3310260 109.4.1.1269 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, E_motif 0.50 42.0 2.47e-01 97.7% 17.7%
3264338 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 44.0 3.49e-01 100.0% 65.6%
3829300 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.50 42.0 2.33e-01 97.7% 9.4%
3802249 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.50 42.0 2.35e-01 97.7% 12.5%
4184275 10.12.1.40 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › JmjC_2 0.50 38.0 2.43e-01 100.0% 14.3%