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OP172825.1__WAX17467.1__PM116P2_00048__00048

Bact-Vir

OP172825.1__WAX17467.1__PM116P2_00048__00048

Identity

Accession:
OP172825 ↗
Kingdom:
phage

Quality

81.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Parabacteroides_phage_PM116P2

TaxID: 2968695

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 18-77
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2cwoA02 1.10.1200.170 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › RNA silencing suppressor P21, C-terminal domain 0.86 62.0 5.56e-01 76.7% 55.4%
3um7A03 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.75 53.0 4.36e-01 73.3% 62.1%
1yz6A02 1.10.150.190 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Translation initiation factor 2; subunit 1; domain 2 0.74 54.0 4.74e-01 76.7% 89.7%
1evyA02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.70 48.0 3.57e-01 71.7% 61.6%
1zv1A00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.70 49.0 5.03e-01 86.7% 74.6%
3hugA00 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 0.70 44.0 4.02e-01 81.7% 48.8%
2ze7A02 1.10.287.890 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Crystal structure of tRNA isopentenylpyrophosphate transferase (bh2366) domain 0.70 60.0 5.02e-01 95.0% 78.4%
3t4rA00 1.20.120.1590 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.68 50.0 4.75e-01 78.3% 91.7%
2dzlA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.68 46.0 4.53e-01 70.0% 68.2%
7qv0F01 1.10.1200.10 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like 0.67 46.0 4.17e-01 71.7% 63.0%
2mh3A00 4.10.280.10 Few Secondary Structures › Irregular › MYOD Basic-Helix-Loop-Helix Domain, subunit B › Helix-loop-helix DNA-binding domain 0.66 55.0 5.27e-01 91.7% 80.0%
2m35A00 1.10.60.50 Mainly Alpha › Orthogonal Bundle › Diphtheria Toxin Repressor; domain 2 › 0.65 47.0 4.97e-01 76.7% 100.0%
3rq9A00 1.10.287.2500 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.64 44.0 4.07e-01 71.7% 55.1%
3vz3A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.64 44.0 2.88e-01 83.3% 16.3%
5kbwB00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.62 45.0 3.27e-01 78.3% 27.5%
1aabA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.62 42.0 3.88e-01 73.3% 79.5%
4f3xA01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.60 41.0 2.70e-01 73.3% 46.6%
4qclA03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.60 50.0 3.25e-01 93.3% 54.2%
1aipH03 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.59 44.0 4.68e-01 85.0% 92.3%
2i7uA00 6.10.250.1010 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.58 38.0 3.79e-01 70.0% 64.5%
2l22A01 1.10.1200.10 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like 0.58 40.0 3.59e-01 76.7% 49.5%
3h4cA02 1.10.472.110 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › 0.57 41.0 3.50e-01 80.0% 80.0%
6qpqB00 1.10.10.580 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Structural maintenance of chromosome 1. Chain E 0.57 38.0 3.55e-01 71.7% 69.1%
4fvmA04 6.10.10.100 Special › Helix non-globular › Helicase, Ruva Protein; domain 3 › 0.56 37.0 4.15e-01 81.7% 89.1%
1gvnA00 1.10.8.130 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.56 44.0 3.92e-01 86.7% 95.4%
5dvwA00 1.20.120.1160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.56 44.0 3.50e-01 88.3% 80.3%
5a2gA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.56 43.0 2.60e-01 88.3% 38.5%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3591175 103.1.1.22 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › ARI1_UBAl 0.76 52.0 5.07e-01 70.0% 67.7%
3233327 103.1.1.143 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_ARIH2_N 0.73 50.0 5.00e-01 70.0% 71.7%
3699443 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.71 49.0 3.87e-01 75.0% 37.4%
3596488 3737.1.1.0 ↗ alpha duplicates or obligate multimers › Major allergen Bla g 1 tandem repeats › Major allergen Bla g 1 tandem repeats › Major allergen Bla g 1 tandem repeats 0.71 49.0 3.76e-01 71.7% 48.0%
163972 103.1.1.28 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_8 0.68 46.0 4.53e-01 70.0% 68.2%
4027571 3871.1.1.1 ↗ alpha duplicates or obligate multimers › PHIST › PHIST › PHIST › PRESAN 0.67 56.0 4.12e-01 90.0% 80.5%
3884801 2004.1.1.112 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › P-mevalo_kinase 0.67 49.0 3.38e-01 78.3% 87.7%
3368695 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.67 47.0 2.88e-01 75.0% 18.7%
4206314 2004.1.1.72 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › IPT 0.65 56.0 3.75e-01 96.7% 74.5%
3889743 105.1.1.1 ↗ alpha duplicates or obligate multimers › HLH-like › HLH, helix-loop-helix DNA-binding domain › HLH, helix-loop-helix DNA-binding domain › HLH 0.63 52.0 4.52e-01 93.3% 57.9%
4024811 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.61 52.0 3.34e-01 93.3% 63.2%
5056578 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.59 47.0 2.95e-01 85.0% 53.6%
1790898 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.59 49.0 3.29e-01 98.3% 62.7%
4986503 7524.1.1.1 ↗ a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › Aldedh 0.59 41.0 2.93e-01 83.3% 21.6%
None — 0.57 47.0 3.03e-01 100.0% 52.1%
5025208 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.56 43.0 2.91e-01 83.3% 95.2%
3214818 304.114.1.0 ↗ a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.55 43.0 2.63e-01 83.3% 44.0%
3496492 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 44.0 2.98e-01 98.3% 57.9%
3710418 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.52 44.0 2.77e-01 100.0% 49.9%