←Back to structures

OP380492.1__UXR28921.1__X__00190

Bact-Vir

OP380492.1__UXR28921.1__X__00190

Identity

Accession:
OP380492 ↗
Kingdom:
phage

Quality

76.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Bacillus_phage_Nachito

TaxID: 2982875

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 2-89
PDB
Domain cluster: representative
CATH (37)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.73 58.0 5.74e-01 93.2% 80.4%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.72 57.0 5.59e-01 93.2% 78.7%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.65 34.0 3.89e-01 71.6% 66.7%
3mpiA01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.65 55.0 4.94e-01 93.2% 81.0%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.64 57.0 4.64e-01 98.9% 100.0%
3ty4B00 3.40.718.10 Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase 0.61 49.0 3.29e-01 88.6% 33.1%
4zi3D00 1.20.1520.10 Mainly Alpha › Up-down Bundle › Adp-ribosylation factor-like protein 2-binding protein fold › ADP-ribosylation factor-like 2-binding protein, domain 0.61 45.0 4.01e-01 79.5% 88.3%
2ed8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 38.0 3.91e-01 88.6% 67.4%
3r7wB02 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.59 38.0 3.49e-01 94.3% 50.0%
3c65A00 3.30.420.340 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › UvrC, RNAse H endonuclease domain 0.58 49.0 4.15e-01 94.3% 56.3%
3cueB00 3.30.1380.20 Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › Trafficking protein particle complex subunit 3 0.58 49.0 3.98e-01 92.0% 97.0%
2nmlA00 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.58 48.0 4.61e-01 90.9% 94.0%
2q1mA00 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.58 42.0 3.85e-01 100.0% 58.6%
2qnuA00 3.40.1730.10 Alpha Beta › 3-Layer(aba) Sandwich › pa0076 fold › pa0076 domain 0.58 41.0 3.13e-01 75.0% 31.3%
4dohE02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 39.0 3.67e-01 93.2% 58.5%
2kgfA00 1.10.375.10 Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein 0.56 43.0 3.73e-01 92.0% 52.1%
3pqaB01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.56 42.0 3.01e-01 80.7% 62.5%
8ek4A01 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.56 49.0 4.36e-01 100.0% 90.2%
1tjlA00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.56 42.0 3.51e-01 78.4% 84.1%
4q5nA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.56 45.0 4.22e-01 89.8% 82.1%
4x28A01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.55 46.0 4.28e-01 93.2% 78.8%
1wkyA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.55 42.0 3.59e-01 96.6% 50.7%
1b48A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.55 45.0 4.21e-01 89.8% 83.5%
2rp4A00 6.10.280.60 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain 0.54 38.0 4.16e-01 86.4% 91.5%
6ldkA01 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.54 45.0 3.66e-01 92.0% 86.0%
3fr3B02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.54 43.0 3.95e-01 86.4% 73.9%
5c9iD01 1.10.439.10 Mainly Alpha › Orthogonal Bundle › Penicillin Amidohydrolase; domain 1 › Penicillin Amidohydrolase, domain 1 0.54 39.0 3.19e-01 76.1% 63.4%
3x29A00 1.20.140.150 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.54 41.0 3.38e-01 83.0% 94.0%
8h68A01 2.60.120.590 Mainly Beta › Sandwich › Jelly Rolls › Alpha-ketoglutarate-dependent dioxygenase AlkB-like 0.53 38.0 2.90e-01 100.0% 30.5%
4me3A03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.53 32.0 3.75e-01 71.6% 94.5%
6s21B01 3.40.720.10 Alpha Beta › 3-Layer(aba) Sandwich › Alkaline Phosphatase, subunit A › Alkaline Phosphatase, subunit A 0.52 44.0 2.96e-01 95.5% 72.6%
4lqqB00 1.20.140.30 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › MOB kinase activator 0.52 44.0 3.82e-01 97.7% 83.6%
3r7wC02 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.52 34.0 3.21e-01 96.6% 54.2%
2qzuA01 3.40.720.10 Alpha Beta › 3-Layer(aba) Sandwich › Alkaline Phosphatase, subunit A › Alkaline Phosphatase, subunit A 0.51 45.0 2.99e-01 100.0% 80.8%
1k8kF00 3.30.1460.20 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.51 46.0 3.73e-01 100.0% 81.4%
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.51 34.0 3.38e-01 71.6% 66.3%
3doeB00 1.20.1520.10 Mainly Alpha › Up-down Bundle › Adp-ribosylation factor-like protein 2-binding protein fold › ADP-ribosylation factor-like 2-binding protein, domain 0.50 43.0 4.06e-01 100.0% 95.6%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5047755 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.78 53.0 4.50e-01 85.2% 44.3%
4930766 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.75 52.0 4.45e-01 86.4% 46.7%
5045774 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.73 51.0 4.33e-01 86.4% 45.0%
3642655 3640.1.1.2 ↗ alpha duplicates or obligate multimers › Minor ampullate fibroin 1 C-terminal domain › Minor ampullate fibroin 1 C-terminal domain › Minor ampullate fibroin 1 C-terminal domain › OPT 0.73 54.0 5.32e-01 78.4% 91.6%
3630540 3877.1.1.0 ↗ alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.68 56.0 4.01e-01 90.9% 94.7%
3929962 3877.1.1.0 ↗ alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.63 52.0 3.83e-01 94.3% 92.9%
3443843 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.62 48.0 2.95e-01 90.9% 12.6%
3302114 109.4.1.619 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DYW_deaminase 0.61 52.0 4.48e-01 94.3% 82.6%
3679318 109.4.1.1992 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, PPR_3, DYW_deaminase, E_motif 0.61 52.0 3.13e-01 94.3% 19.0%
3998888 3562.1.1.7 ↗ alpha bundles › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › ERMP1-TM 0.61 44.0 3.60e-01 77.3% 72.4%
3452954 109.4.1.1285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif 0.60 51.0 3.11e-01 94.3% 24.4%
3383616 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.60 52.0 3.08e-01 94.3% 17.7%
None — 0.60 51.0 4.42e-01 94.3% 81.9%
3320698 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.60 51.0 3.06e-01 94.3% 17.9%
3677917 109.3.1.320 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › DYW_deaminase 0.60 51.0 4.44e-01 94.3% 83.0%
3684103 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.60 43.0 2.64e-01 87.5% 11.4%
5051070 316.1.1.2 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.60 41.0 3.41e-01 70.5% 63.2%
3802293 109.4.1.2064 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif, TPR_24 0.59 50.0 3.27e-01 94.3% 27.9%
3299472 109.4.1.2982 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, PPR_long, Eplus_motif, E_motif 0.59 50.0 3.27e-01 94.3% 27.9%
3514491 5.1.4.242 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PEP5_VPS11_N 0.59 40.0 2.60e-01 84.1% 15.6%
3351960 109.4.1.2979 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, PPR_3, DYW_deaminase, Eplus_motif, E_motif 0.59 49.0 2.98e-01 93.2% 18.4%
3808939 109.4.1.619 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DYW_deaminase 0.58 49.0 4.32e-01 95.5% 97.8%
3663499 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.58 50.0 3.03e-01 98.9% 23.6%
3833836 109.4.1.619 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DYW_deaminase 0.58 48.0 4.16e-01 93.2% 82.0%
3816405 109.4.1.1383 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, Eplus_motif, E_motif 0.57 50.0 3.06e-01 98.9% 22.9%
3335071 109.4.1.1285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif 0.57 48.0 2.96e-01 94.3% 24.6%
3648991 2492.1.1.39 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › DYW_deaminase 0.57 48.0 4.28e-01 94.3% 81.5%
3825001 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.57 47.0 2.86e-01 94.3% 19.7%
3807308 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.57 50.0 2.99e-01 98.9% 23.1%
3356833 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.56 47.0 2.88e-01 94.3% 22.6%
3669284 109.4.1.1738 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, DYW_deaminase, Eplus_motif, E_motif 0.56 49.0 2.96e-01 97.7% 22.2%
3831659 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.56 46.0 2.81e-01 94.3% 20.6%
None — 0.56 46.0 4.08e-01 93.2% 84.4%
3420651 109.4.1.1521 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, DYW_deaminase, Eplus_motif, E_motif 0.56 47.0 3.22e-01 95.5% 40.9%
3401287 603.2.1.12 ↗ alpha bundles › STAT-like › STAT › STAT › 7tm_7 0.56 49.0 3.19e-01 97.7% 62.4%
4988210 7516.1.1.2 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.56 47.0 3.22e-01 93.2% 57.5%
3354291 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.56 46.0 3.27e-01 95.5% 44.7%
3379402 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.55 46.0 2.82e-01 95.5% 21.6%
3434775 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.55 46.0 2.79e-01 94.3% 21.4%
3645596 109.4.1.1476 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, DYW_deaminase, E_motif 0.55 46.0 2.84e-01 95.5% 24.0%
3807903 109.4.1.2208 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif, TPR_24 0.55 47.0 2.87e-01 97.7% 25.7%
3371469 109.4.1.3022 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, Eplus_motif, E_motif, TPR_24 0.55 45.0 2.79e-01 94.3% 22.4%
3346510 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.54 45.0 2.78e-01 94.3% 22.9%
3651007 109.4.1.1285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif 0.54 45.0 2.75e-01 95.5% 20.6%
3972199 210.2.1.3 ↗ a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain › PP2C_2 0.54 48.0 3.37e-01 100.0% 59.6%
3475200 223.2.1.33 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_3 0.54 39.0 3.47e-01 92.0% 52.3%
3379348 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.54 45.0 2.78e-01 93.2% 16.6%
3595048 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.54 44.0 3.20e-01 93.2% 40.0%
3419226 109.4.1.3173 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_3, DYW_deaminase, Eplus_motif, E_motif 0.53 44.0 3.04e-01 94.3% 40.0%
3974655 223.3.1.3 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Transpeptidase 0.53 36.0 3.09e-01 97.7% 43.6%
3496147 821.1.1.0 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.53 36.0 3.52e-01 71.6% 73.0%
3439118 109.4.1.1285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif 0.53 43.0 2.65e-01 93.2% 17.5%
5031280 316.1.1.2 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.51 43.0 3.63e-01 94.3% 74.8%
3831039 109.4.1.1599 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase 0.51 43.0 2.56e-01 94.3% 17.9%
3599754 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.51 37.0 3.59e-01 76.1% 83.0%
3253225 130.1.1.1 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › SAP 0.51 38.0 3.90e-01 83.0% 82.4%
3184071 633.21.1.0 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.51 44.0 3.56e-01 97.7% 60.0%
3682973 109.4.1.2641 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR_2, DYW_deaminase, Eplus_motif 0.50 41.0 2.81e-01 88.6% 48.4%
3444049 109.4.1.1285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif 0.50 44.0 2.74e-01 98.9% 67.5%