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NC_054726.1__YP_010059541.1__KHQ86_gp065__00065

Bact-Vir

NC_054726.1__YP_010059541.1__KHQ86_gp065__00065

Identity

Accession:
NC_054726 ↗
Kingdom:
phage

Quality

85.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Stormageddonvirus› Gordonia_phage_Stormageddon

TaxID: 2656541

Cluster

View cluster (4 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 16-94
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF23875.2 best DUF7229 118.2 2.00e-34 100.0% 90.0%
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5d8cA00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.86 60.0 5.04e-01 79.7% 45.2%
3gpvA00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.86 60.0 5.22e-01 79.7% 50.4%
5i41B00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.85 58.0 6.31e-01 79.7% 83.6%
3gp4B00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.84 59.0 4.89e-01 79.7% 43.8%
3hh0A01 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.82 57.0 6.00e-01 82.3% 79.2%
5yc9B01 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.81 51.0 4.72e-01 81.0% 51.5%
2zhgA00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.81 55.0 4.75e-01 79.7% 46.3%
3ucsA00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.77 53.0 4.91e-01 79.7% 56.6%
1r8eA02 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.77 54.0 5.65e-01 82.3% 79.5%
4b43A01 1.10.10.2480 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.75 50.0 5.33e-01 82.3% 79.4%
2zttA00 6.10.140.720 Special › Helix non-globular › Helix Hairpins › 0.65 46.0 4.84e-01 98.7% 80.8%
6fhpD00 1.10.390.10 Mainly Alpha › Orthogonal Bundle › Neutral Protease; domain 2 › Neutral Protease Domain 2 0.64 43.0 4.70e-01 89.9% 87.1%
8gf5C01 3.30.70.470 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 51.0 4.35e-01 100.0% 88.7%
2nrlA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.58 47.0 3.96e-01 91.1% 86.9%
4bucA02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.57 50.0 3.74e-01 98.7% 88.7%
5c8aA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.57 48.0 4.89e-01 100.0% 91.0%
2wnsA00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 48.0 3.54e-01 91.1% 92.9%
1j3eA00 1.20.1380.10 Mainly Alpha › Up-down Bundle › Replication modulator SeqA, C-terminal DNA-binding domain › Replication modulator SeqA, C-terminal DNA-binding domain 0.56 47.0 4.22e-01 96.2% 82.6%
1umpA01 1.50.10.20 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.56 40.0 2.69e-01 77.2% 29.7%
2wy4A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.56 45.0 3.82e-01 91.1% 84.9%
3a1iA02 3.90.1300.10 Alpha Beta › Alpha-Beta Complex › Amidase signature (AS) enzymes › Amidase signature (AS) domain 0.55 40.0 2.54e-01 78.5% 88.1%
3d7iB00 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.55 42.0 3.90e-01 97.5% 65.3%
2wvlB00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.55 48.0 3.12e-01 100.0% 35.3%
4gb7A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.55 48.0 3.09e-01 100.0% 66.5%
2w4sA00 1.10.10.1440 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › PHAX RNA-binding domain 0.54 45.0 4.44e-01 92.4% 90.7%
2rldA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.54 49.0 4.28e-01 98.7% 79.8%
3hjeA03 1.10.150.200 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Maltooligosyl trehalose synthase; domain 3 0.53 39.0 3.78e-01 96.2% 68.1%
4ag6A02 1.10.8.730 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.53 45.0 4.08e-01 97.5% 84.5%
1q8cA00 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.53 45.0 3.84e-01 96.2% 81.8%
3feyA02 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.53 43.0 3.21e-01 97.5% 35.9%
3eeeA00 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.52 45.0 3.47e-01 98.7% 90.4%
3hibA01 1.10.3380.10 Mainly Alpha › Orthogonal Bundle › Sec63 N-terminal domain-like fold › Sec63 N-terminal domain-like domain 0.52 43.0 3.85e-01 100.0% 64.4%
4a4aA04 1.20.120.670 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › N-acetyl-b-d-glucoasminidase 0.51 43.0 3.00e-01 96.2% 60.7%
2odmA00 1.10.287.750 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like 0.51 40.0 4.09e-01 87.3% 83.5%
3b34A05 1.25.50.10 Mainly Alpha › Alpha Horseshoe › Zincin-like fold › Peptidase M1, alanyl aminopeptidase, C-terminal domain 0.50 39.0 2.68e-01 86.1% 58.8%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3285399 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.86 50.0 6.17e-01 73.4% 92.0%
3587879 101.1.9.36 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR 0.86 60.0 5.25e-01 81.0% 51.8%
4668445 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.85 56.0 6.59e-01 74.7% 96.4%
5070666 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.85 55.0 6.46e-01 74.7% 94.5%
5007668 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.85 59.0 4.97e-01 81.0% 45.6%
4536234 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.84 59.0 5.11e-01 82.3% 49.6%
3288205 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.84 58.0 5.79e-01 79.7% 70.0%
3291218 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.84 58.0 4.80e-01 82.3% 43.1%
4034325 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.83 59.0 4.95e-01 81.0% 46.4%
171609 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.82 57.0 4.74e-01 82.3% 42.9%
4929856 101.1.9.18 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_2 0.82 56.0 5.38e-01 79.7% 62.2%
3282255 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.82 58.0 5.17e-01 81.0% 53.7%
3966276 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.82 58.0 5.11e-01 82.3% 52.7%
3278372 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.82 57.0 6.23e-01 100.0% 87.7%
3280706 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.81 56.0 5.58e-01 82.3% 70.0%
3943313 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.81 57.0 4.96e-01 81.0% 50.4%
3966930 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.80 55.0 4.89e-01 82.3% 50.9%
3948487 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.80 55.0 4.58e-01 82.3% 42.2%
4564454 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.80 56.0 5.08e-01 81.0% 55.2%
None — 0.80 55.0 5.89e-01 79.7% 81.4%
4254112 101.1.9.18 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_2 0.79 54.0 5.21e-01 82.3% 62.2%
4334333 101.1.9.1 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR,MerR-DNA-bind 0.79 54.0 4.42e-01 79.7% 40.0%
3291061 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.78 55.0 4.83e-01 82.3% 50.4%
3284505 101.1.9.36 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR 0.78 54.0 4.77e-01 81.0% 49.6%
4061721 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.78 54.0 4.56e-01 82.3% 43.8%
3291393 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.75 53.0 4.67e-01 82.3% 50.4%
3281073 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.75 53.0 4.80e-01 82.3% 55.2%
3285380 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.75 60.0 5.02e-01 83.5% 68.0%
4994828 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.75 44.0 4.71e-01 81.0% 67.1%
5073620 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.74 51.0 5.62e-01 81.0% 87.7%
3590098 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.74 59.0 5.10e-01 83.5% 72.2%
3976170 101.1.9.26 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › YfeC-like 0.74 52.0 5.51e-01 82.3% 82.9%
3945289 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.73 59.0 4.96e-01 84.8% 66.4%
4311945 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.73 48.0 4.01e-01 73.4% 40.8%
3957229 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.70 49.0 5.50e-01 82.3% 95.0%
4056248 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.70 51.0 4.26e-01 79.7% 45.2%
3284686 101.1.9.84 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR, MerR_1 0.69 59.0 4.16e-01 92.4% 97.0%
3948669 101.1.9.26 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › YfeC-like 0.68 49.0 4.35e-01 89.9% 53.0%
3961155 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.66 60.0 4.97e-01 100.0% 95.6%
2321070 109.4.1.127 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MIF4G_like 0.64 44.0 3.27e-01 70.9% 50.3%
3956116 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.61 49.0 4.16e-01 100.0% 53.6%
4977761 4995.1.1.1 ↗ alpha arrays › Methionine synthase domain-like › Methionine synthase domain-like › Methionine synthase domain-like › B12-binding_2 0.59 52.0 4.92e-01 100.0% 81.1%
4965830 5082.1.1.1 ↗ alpha bundles › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation_efflux 0.58 40.0 2.86e-01 70.9% 36.5%
3197091 219.1.1.93 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › DUF6540 0.58 53.0 4.54e-01 100.0% 85.5%
3978509 148.1.3.217 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › PrkA, AAA_PrkA 0.57 50.0 3.98e-01 100.0% 74.5%
3948139 2485.1.1.81 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › TraF 0.56 46.0 3.63e-01 88.6% 80.0%
3988605 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.55 39.0 3.97e-01 75.9% 76.2%
3822155 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.53 45.0 3.78e-01 100.0% 79.3%
4024376 5048.1.1.0 ↗ alpha complex topology › Aquaporin-like › Aquaporin-like › Aquaporin-like 0.52 40.0 2.93e-01 81.0% 73.8%
3742809 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 45.0 3.80e-01 100.0% 88.1%