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js4906-25-2-S21_Prophage_curated_prodigal-single.1__X__X__00221
Bact-Virjs4906-25-2-S21_Prophage_curated_prodigal-single.1__X__X__00221
3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
high
residues 3-96
Domain cluster:
rep: ON135435.1__UPI15601.1__PhiBP823_50__00050__D56-144
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF01807.26 best | Zn_ribbon_DnaG | 28.3 | 1.80e-06 | 89.4% | 46.9% |
CATH (5)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1d0qA00 | 3.90.580.10 | Alpha Beta › Alpha-Beta Complex › DNA Primase; Chain A › Zinc finger, CHC2-type domain | 0.78 | 69.0 | 6.73e-01 | 95.7% | 93.1% |
| 3kp1E02 | 1.10.8.1000 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ornithine 4,5 aminomutase S component, alpha subunit-like | 0.62 | 34.0 | 3.81e-01 | 90.4% | 70.0% |
| 1rykA00 | 1.10.1470.10 | Mainly Alpha › Orthogonal Bundle › Protein Yjbj; Chain: A; › YjbJ | 0.58 | 36.0 | 4.15e-01 | 85.1% | 87.0% |
| 1v5rA00 | 3.30.920.20 | Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Gas2-like domain | 0.56 | 38.0 | 3.79e-01 | 70.2% | 75.3% |
| 1vqzA01 | 3.30.930.10 | Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 | 0.54 | 45.0 | 3.40e-01 | 93.6% | 87.2% |
ECOD (30)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4166935 | 375.1.1.15 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-CHC2 | 0.83 | 74.0 | 7.30e-01 | 94.7% | 93.0% |
| 3590274 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.81 | 72.0 | 7.38e-01 | 93.6% | 100.0% |
| 4639076 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.81 | 71.0 | 7.09e-01 | 93.6% | 91.6% |
| 4539347 | 375.1.1.15 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-CHC2 | 0.79 | 69.0 | 6.77e-01 | 93.6% | 92.0% |
| 4680318 | 375.1.1.15 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-CHC2 | 0.79 | 68.0 | 6.98e-01 | 92.6% | 100.0% |
| 8015 | 375.1.1.15 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-CHC2 | 0.78 | 69.0 | 6.73e-01 | 95.7% | 93.1% |
| 3942532 | 375.1.1.39 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Prim_Zn_Ribbon | 0.74 | 63.0 | 6.56e-01 | 90.4% | 100.0% |
| 3943026 | 375.1.1.39 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Prim_Zn_Ribbon | 0.73 | 59.0 | 5.67e-01 | 88.3% | 82.6% |
| 3274279 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.72 | 50.0 | 5.21e-01 | 70.2% | 91.8% |
| 4940785 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.71 | 61.0 | 5.74e-01 | 93.6% | 91.3% |
| 3772921 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.68 | 50.0 | 4.89e-01 | 76.6% | 85.0% |
| 4023805 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.67 | 53.0 | 5.54e-01 | 84.0% | 100.0% |
| 4995759 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.65 | 48.0 | 5.15e-01 | 79.8% | 100.0% |
| 3576759 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.61 | 42.0 | 4.72e-01 | 75.5% | 97.1% |
| 3056107 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.59 | 49.0 | 4.77e-01 | 91.5% | 94.3% |
| 3929050 | 216.1.1.4 ↗ | a+b two layers › UBC-like › UBC-like › UBC-like › RWD | 0.59 | 40.0 | 3.80e-01 | 70.2% | 81.7% |
| 3739664 | 247.1.1.38 ↗ | a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › CPSF73-100_C | 0.56 | 37.0 | 4.12e-01 | 85.1% | 91.4% |
| 5011773 | 314.1.1.12 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › LplA-B_cat | 0.55 | 46.0 | 3.45e-01 | 93.6% | 86.4% |
| 3752730 | 241.10.1.1 ↗ | a+b two layers › Type III secretory system chaperone-like › GAS2 domain › GAS2 domain › GAS2 | 0.54 | 36.0 | 3.55e-01 | 70.2% | 67.6% |
| 4971174 | 314.1.1.0 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases | 0.53 | 43.0 | 3.29e-01 | 92.6% | 86.7% |
| 4436104 | 314.1.1.12 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › LplA-B_cat | 0.52 | 43.0 | 3.30e-01 | 93.6% | 87.9% |
| 4988938 | 314.1.1.12 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › LplA-B_cat | 0.52 | 42.0 | 3.23e-01 | 94.7% | 81.2% |
| 4984097 | 314.1.1.12 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › LplA-B_cat | 0.52 | 42.0 | 3.19e-01 | 91.5% | 77.1% |
| 4998758 | 314.1.1.12 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › LplA-B_cat | 0.52 | 42.0 | 3.20e-01 | 93.6% | 86.3% |
| 4947841 | 314.1.1.12 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › LplA-B_cat | 0.51 | 42.0 | 3.21e-01 | 93.6% | 88.0% |
| 3710689 | 331.4.1.0 ↗ | a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 | 0.51 | 42.0 | 4.12e-01 | 89.4% | 95.0% |
| 3479080 | 331.4.1.0 ↗ | a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 | 0.51 | 40.0 | 4.12e-01 | 85.1% | 98.9% |
| 3416709 | 3409.1.1.0 ↗ | a+b duplicates or obligate multimers › Vacuolar protein sorting-associated protein 30 BARA domain › Vacuolar protein sorting-associated protein 30 BARA domain › Vacuolar protein sorting-associated protein 30 BARA domain | 0.51 | 41.0 | 3.39e-01 | 90.4% | 75.1% |
| 4023881 | 314.1.1.12 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › LplA-B_cat | 0.50 | 44.0 | 3.23e-01 | 100.0% | 71.3% |
| 4134201 | 211.1.1.1 ↗ | a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase | 0.50 | 38.0 | 3.39e-01 | 79.8% | 75.6% |
D2
high
residues 310-388
D3
medium
residues 120-302
Domain cluster:
rep: MN313256.1__QGJ84312.1__X__00026__D119-268
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF13155.13 best | Toprim_2 | 48.8 | 1.10e-12 | 50.8% | 87.5% |
CATH (13)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1bmtA02 | 3.40.50.280 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Cobalamin-binding domain | 0.70 | 39.0 | 4.24e-01 | 87.4% | 63.9% |
| 3om0A02 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.63 | 38.0 | 4.06e-01 | 89.6% | 68.1% |
| 1oi2A01 | 3.40.50.10440 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Dihydroxyacetone kinase; domain 1 | 0.61 | 45.0 | 4.66e-01 | 81.4% | 78.6% |
| 2rbgA00 | 3.40.50.11100 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.58 | 35.0 | 4.18e-01 | 88.0% | 87.1% |
| 2afrA00 | 3.40.50.10230 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Cobalamin biosynthesis CobH/CbiC, precorrin-8X methylmutase | 0.55 | 37.0 | 3.57e-01 | 94.0% | 57.4% |
| 4n5hX00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.55 | 48.0 | 4.02e-01 | 95.1% | 81.6% |
| 4eygA02 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.55 | 38.0 | 4.03e-01 | 89.1% | 78.0% |
| 4evsA02 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.54 | 39.0 | 4.02e-01 | 89.1% | 77.2% |
| 5hc2B00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.54 | 48.0 | 3.88e-01 | 94.5% | 78.4% |
| 3k6kA00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.53 | 47.0 | 3.99e-01 | 95.1% | 80.1% |
| 5f2hA01 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.52 | 42.0 | 4.23e-01 | 95.1% | 86.1% |
| 1reqA02 | 3.40.50.280 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Cobalamin-binding domain | 0.51 | 39.0 | 4.15e-01 | 88.5% | 88.4% |
| 3pvzB00 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.51 | 37.0 | 3.18e-01 | 96.7% | 46.3% |
ECOD (25)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4426393 | 2006.1.3.6 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim_2 | 0.78 | 46.0 | 5.43e-01 | 72.1% | 82.3% |
| 4946409 | 7522.1.1.0 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like | 0.71 | 44.0 | 5.30e-01 | 71.0% | 90.4% |
| 5067068 | 7522.1.1.4 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › PFOR_II | 0.71 | 43.0 | 4.81e-01 | 71.0% | 75.9% |
| 4990562 | 7522.1.1.1 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › Transketolase_C | 0.70 | 46.0 | 5.20e-01 | 78.1% | 85.7% |
| 4488757 | 7522.1.1.1 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › Transketolase_C | 0.69 | 48.0 | 5.43e-01 | 83.1% | 91.4% |
| 5069682 | 7522.1.1.4 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › PFOR_II | 0.69 | 44.0 | 5.02e-01 | 81.4% | 85.2% |
| 4991816 | 2007.1.11.0 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › L-fucose isomerase, N-terminal and second domains | 0.69 | 36.0 | 4.27e-01 | 94.0% | 71.5% |
| 4497015 | 7522.1.1.1 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › Transketolase_C | 0.69 | 46.0 | 5.20e-01 | 88.0% | 87.9% |
| 4968325 | 7522.1.1.4 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › PFOR_II | 0.69 | 44.0 | 4.78e-01 | 81.4% | 75.5% |
| 4478463 | 7522.1.1.1 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › Transketolase_C | 0.69 | 45.0 | 5.25e-01 | 76.5% | 90.4% |
| 3340289 | 7522.1.1.1 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › Transketolase_C | 0.69 | 47.0 | 5.22e-01 | 81.4% | 86.9% |
| 5000410 | 7522.1.1.4 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › PFOR_II | 0.69 | 44.0 | 4.97e-01 | 81.4% | 82.5% |
| 5056335 | 7522.1.1.1 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › Transketolase_C | 0.67 | 44.0 | 5.10e-01 | 71.6% | 89.6% |
| 4136382 | 7522.1.1.1 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › Transketolase_C | 0.67 | 47.0 | 5.11e-01 | 96.2% | 84.4% |
| 4963536 | 7522.1.1.1 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › Transketolase_C | 0.67 | 49.0 | 5.39e-01 | 92.9% | 91.3% |
| 4244185 | 7522.1.1.1 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › Transketolase_C | 0.67 | 44.0 | 5.13e-01 | 71.0% | 91.1% |
| 4985837 | 7522.1.1.0 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like | 0.67 | 44.0 | 5.14e-01 | 72.1% | 91.1% |
| 4270708 | 2006.1.3.7 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim_4 | 0.66 | 45.0 | 5.26e-01 | 82.5% | 93.3% |
| 5068157 | 7522.1.1.1 ↗ | a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › Transketolase_C | 0.62 | 44.0 | 4.57e-01 | 90.2% | 77.6% |
| 4948240 | 7569.1.1.0 ↗ | a/b three-layered sandwiches › Uracil-DNA glycosylase-like › Uracil-DNA glycosylase-like › Uracil-DNA glycosylase-like | 0.62 | 47.0 | 4.76e-01 | 78.7% | 88.5% |
| 3472776 | 2007.1.2.4 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › ANF_receptor | 0.61 | 37.0 | 4.16e-01 | 90.2% | 76.6% |
| 3908657 | 2010.1.1.2 ↗ | a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › Dak1 | 0.58 | 46.0 | 4.36e-01 | 96.7% | 71.0% |
| 4009368 | 2007.1.14.7 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Chelatase-like › HGD-D | 0.53 | 43.0 | 4.14e-01 | 86.3% | 79.8% |
| 1721557 | 7579.1.1.18 ↗ | a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Abhydrolase_2 | 0.52 | 42.0 | 4.09e-01 | 95.1% | 78.8% |
| 3249866 | 7585.1.1.1 ↗ | a/b three-layered sandwiches › Rossmann-like domains in Sec1/munc18-like proteins › Rossmann-like domains in Sec1/munc18-like proteins › Rossmann-like domains in Sec1/munc18-like proteins › Sec1 | 0.50 | 37.0 | 4.19e-01 | 99.5% | 97.1% |