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OK040790.1__UDL15992.1__SEA_PUMPERNICKEL_242__00201

Bact-Vir

OK040790.1__UDL15992.1__SEA_PUMPERNICKEL_242__00201

Identity

Accession:
OK040790 ↗
Kingdom:
phage

Quality

81.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pumpernickelvirus› Microbacterium_phage_Pumpernickel

TaxID: 2885983

Cluster

View cluster (3 members)

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 88-172
PDB
Domain cluster: rep: NC_054726.1__YP_010059639.1__KHQ86_gp136__00163__D59-136
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF05305.20 best DUF732 34.0 4.50e-08 83.5% 100.0%
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3lcnB00 1.10.340.40 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Nuclear abundant poly(A) RNA-bind protein 2, N-terminal domain 0.70 53.0 5.13e-01 84.7% 72.2%
2w7nA00 1.10.10.2690 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.69 40.0 3.95e-01 84.7% 52.1%
3fblA00 1.20.58.800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 54.0 5.56e-01 85.9% 98.8%
3fbzA01 1.20.58.800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 55.0 5.18e-01 87.1% 82.4%
4ad9A02 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 0.68 49.0 4.98e-01 76.5% 84.5%
2mgqA00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.68 47.0 5.07e-01 80.0% 89.7%
4ezbA02 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 0.67 46.0 4.17e-01 71.8% 93.2%
1uaaA02 1.10.10.160 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.66 49.0 5.14e-01 88.2% 90.5%
3t0yA02 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 0.66 37.0 4.24e-01 82.4% 76.7%
2f2cA02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.66 47.0 4.43e-01 83.5% 61.3%
4krdB00 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.64 50.0 3.92e-01 85.9% 65.8%
2w31A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.61 52.0 4.43e-01 98.8% 75.0%
3zh9B03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.61 43.0 3.80e-01 74.1% 82.5%
4fcyA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.60 45.0 4.70e-01 83.5% 85.9%
1txuA01 1.10.246.120 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.59 48.0 4.73e-01 91.8% 95.7%
2kiwA01 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.58 45.0 4.56e-01 88.2% 96.5%
3mc1A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.57 36.0 4.02e-01 82.4% 82.1%
4c0eA01 1.25.40.790 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.57 43.0 3.12e-01 84.7% 45.9%
7dwqL01 1.20.1240.10 Mainly Alpha › Up-down Bundle › Photosystem 1 Reaction Centre Subunit Xi; Chain: L; › Photosystem I PsaL, reaction centre subunit XI 0.57 40.0 3.54e-01 72.9% 85.6%
2gh1A02 1.10.150.350 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.56 45.0 4.11e-01 84.7% 83.3%
2es9A00 1.20.1290.30 Mainly Alpha › Up-down Bundle › AhpD-like › 0.56 41.0 3.92e-01 78.8% 70.0%
3keoA01 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 0.55 38.0 4.01e-01 71.8% 100.0%
3akjA02 1.10.1070.20 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › 0.54 38.0 2.94e-01 72.9% 44.8%
2r5sA02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.54 40.0 4.04e-01 82.4% 76.1%
3vayA02 1.20.120.1600 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.54 42.0 4.23e-01 83.5% 89.7%
1udyA01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.54 37.0 3.42e-01 72.9% 55.0%
1jpdX01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.53 45.0 4.31e-01 96.5% 92.9%
2i0mA02 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.52 39.0 3.75e-01 80.0% 97.0%
5xdcB01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.52 39.0 3.67e-01 83.5% 78.4%
3f7cA00 1.20.1590.10 Mainly Alpha › Up-down Bundle › YP_001051499.1 fold like › YP_001051499.1 domain like 0.52 41.0 3.18e-01 87.1% 49.7%
1gakA00 1.20.150.10 Mainly Alpha › Up-down Bundle › Lysin › Fertilization protein 0.51 38.0 3.27e-01 80.0% 79.6%
4ip8A00 1.10.132.110 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Serum amyloid A protein 0.51 38.0 3.66e-01 83.5% 76.2%
ECOD (30)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3955500 101.1.2.655 ↗ alpha arrays › HTH › HTH › winged helix domain › DUF732 0.89 78.0 8.10e-01 92.9% 100.0%
5027591 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.88 53.0 6.47e-01 77.6% 94.5%
3954237 532.2.1.16 ↗ alpha arrays › Type III secretion system domain-like › Type III secretion system domains › Type III secretion system domains › DUF732 0.86 77.0 7.93e-01 100.0% 100.0%
5030241 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.84 50.0 5.89e-01 77.6% 85.0%
4983993 101.1.3.0 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like 0.74 49.0 5.57e-01 88.2% 95.0%
4239374 4156.1.1.4 ↗ alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › HA2_C 0.71 55.0 4.49e-01 83.5% 63.2%
3993676 3919.1.1.0 ↗ alpha duplicates or obligate multimers › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 0.69 49.0 4.61e-01 78.8% 61.0%
3401715 4156.1.1.0 ↗ alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like 0.69 53.0 3.90e-01 83.5% 40.9%
3213449 509.1.1.0 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain 0.66 49.0 5.23e-01 97.6% 98.6%
3501859 4156.1.1.4 ↗ alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › HA2_C 0.65 51.0 3.79e-01 84.7% 51.4%
3957626 2004.1.3.1 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III › POR 0.65 51.0 4.26e-01 85.9% 50.7%
3777242 3919.1.1.2 ↗ alpha duplicates or obligate multimers › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › COMM_HN 0.65 52.0 4.60e-01 85.9% 68.3%
3272819 3919.1.1.2 ↗ alpha duplicates or obligate multimers › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › COMM_HN 0.64 47.0 4.35e-01 78.8% 61.8%
4053440 3455.1.1.0 ↗ alpha arrays › WY-domain in RXLR effectors › WY-domain in RXLR effectors › WY-domain in RXLR effectors 0.64 51.0 5.39e-01 87.1% 100.0%
3906253 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.63 44.0 3.98e-01 83.5% 52.5%
4914663 109.3.1.167 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ion_trans, TRPM2 0.62 48.0 3.05e-01 84.7% 46.7%
4530493 3455.1.1.0 ↗ alpha arrays › WY-domain in RXLR effectors › WY-domain in RXLR effectors › WY-domain in RXLR effectors 0.61 41.0 4.39e-01 71.8% 82.9%
3847014 3919.1.1.2 ↗ alpha duplicates or obligate multimers › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › COMM_HN 0.61 46.0 4.22e-01 82.4% 74.8%
4112388 101.35.1.19 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH2+RecX_HTH1 0.60 43.0 4.10e-01 75.3% 83.0%
3709633 509.1.1.9 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH_ZNF598 0.59 51.0 4.91e-01 98.8% 85.0%
3738138 180.1.1.1 ↗ alpha bundles › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › PAP2 0.59 45.0 3.70e-01 84.7% 61.2%
3248700 3919.1.1.2 ↗ alpha duplicates or obligate multimers › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › COMM_HN 0.58 45.0 4.22e-01 84.7% 77.3%
3936170 4964.1.1.0 ↗ alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I 0.58 47.0 3.98e-01 89.4% 84.1%
3641832 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.57 41.0 3.98e-01 84.7% 67.4%
4105166 3455.1.1.0 ↗ alpha arrays › WY-domain in RXLR effectors › WY-domain in RXLR effectors › WY-domain in RXLR effectors 0.56 45.0 3.72e-01 88.2% 97.5%
5027469 2004.1.1.29 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DEAD 0.54 47.0 2.95e-01 100.0% 32.6%
5044642 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.53 42.0 3.02e-01 94.1% 28.6%
3934928 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.52 37.0 3.62e-01 75.3% 92.6%
4963273 622.1.1.37 ↗ alpha bundles › YvfG-like › HSC20 (HSCB), C-terminal oligomerisation domain › HSC20 (HSCB), C-terminal oligomerisation domain › PF25926 0.51 43.0 4.01e-01 97.6% 95.7%
3377936 3922.1.1.173 ↗ alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › DUF3493 0.51 27.0 2.75e-01 83.5% 49.4%