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NC_070825.1__YP_010660106.1__PP589_gp22__00022

Bact-Vir

NC_070825.1__YP_010660106.1__PP589_gp22__00022

Identity

Accession:
NC_070825 ↗
Kingdom:
phage

Quality

84.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pseudoalteromonas_phage_HS5

TaxID: 1357709

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 19-81
PDB
Domain cluster: representative
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3f4mA00 1.20.1440.160 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Tumor necrosis factor alpha-induced protein 8-like 0.76 49.0 3.60e-01 79.4% 26.6%
4nooB00 1.10.8.1160 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.75 66.0 5.79e-01 100.0% 81.1%
1zk8B02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.74 51.0 3.97e-01 71.4% 35.6%
1v4aA01 1.10.4050.10 Mainly Alpha › Orthogonal Bundle › Nucleotidyltransferase substrate binding subunit/domain fold › Glutamine synthase adenylyltransferase GlnE 0.74 49.0 4.04e-01 74.6% 39.4%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.72 50.0 4.09e-01 73.0% 43.6%
1iuqA01 1.10.1200.50 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Glycerol-3-phosphate acyltransferase, alpha helical bundle, N-terminal 0.72 62.0 5.84e-01 98.4% 84.2%
6xxvC00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.72 51.0 4.17e-01 74.6% 49.5%
2f93B00 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.69 47.0 5.13e-01 73.0% 90.2%
1tmxB00 2.60.130.10 Mainly Beta › Sandwich › Protocatechuate 3,4-Dioxygenase, subunit A › Aromatic compound dioxygenase 0.68 48.0 3.15e-01 76.2% 17.1%
2l09A01 1.10.8.550 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Proto-chlorophyllide reductase 57 kD subunit B 0.67 49.0 5.33e-01 98.4% 96.2%
4hkaA02 1.10.287.3810 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.66 45.0 4.95e-01 73.0% 88.2%
2hh6A00 1.10.1900.10 Mainly Alpha › Orthogonal Bundle › c-terminal domain of poly(a) binding protein › c-terminal domain of poly(a) binding protein 0.66 54.0 4.56e-01 100.0% 53.2%
2y1eA03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.65 57.0 5.13e-01 98.4% 75.9%
1wgwA00 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.64 53.0 4.67e-01 95.2% 80.8%
3qqaA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.64 44.0 3.48e-01 73.0% 33.3%
3a06B03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.63 54.0 4.87e-01 98.4% 75.0%
1ldjA02 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.63 45.0 3.71e-01 77.8% 41.5%
4m70I00 1.20.5.4130 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.63 57.0 4.72e-01 100.0% 69.4%
4hr1A00 1.20.1270.410 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.62 54.0 4.45e-01 98.4% 75.4%
1xjaB00 2.60.120.280 Mainly Beta › Sandwich › Jelly Rolls › Regulatory protein AraC 0.62 54.0 4.13e-01 100.0% 98.1%
5llwA02 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.62 52.0 4.12e-01 96.8% 57.7%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 43.0 4.10e-01 73.0% 90.4%
3ejbH02 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.62 47.0 3.10e-01 82.5% 40.8%
1j8yF01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.62 52.0 4.78e-01 100.0% 77.9%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.61 43.0 3.96e-01 73.0% 98.7%
4fxdA04 3.90.1600.10 Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain 0.61 49.0 3.67e-01 87.3% 57.5%
3e0sA00 1.40.20.10 Mainly Alpha › Alpha solenoid › CHAD domain › CHAD domain 0.59 41.0 2.71e-01 74.6% 98.6%
3nzpB03 1.20.58.930 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 43.0 4.04e-01 96.8% 65.8%
6lumD01 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.56 50.0 4.03e-01 100.0% 85.6%
2rdcA00 1.10.287.800 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 0.56 48.0 3.75e-01 93.7% 65.4%
7wjlA01 3.40.800.20 Alpha Beta › 3-Layer(aba) Sandwich › Arginase; Chain A › Histone deacetylase domain 0.55 46.0 2.81e-01 93.7% 80.8%
6cgvM01 1.20.120.1500 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Pre-hexon-linking protein IIIa 0.55 45.0 3.55e-01 96.8% 43.3%
1dt9A01 3.30.960.10 Alpha Beta › 2-Layer Sandwich › Translation, Eukaryotic Peptide Chain Release Factor Subunit 1; Chain A › eRF1 domain 1 0.53 43.0 3.70e-01 92.1% 82.9%
2qsbA00 1.20.1440.50 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Ta0600-like 0.53 44.0 4.08e-01 100.0% 71.8%
3kkbA00 1.20.120.880 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Histidine kinase (KinB), sensor domain 0.53 46.0 3.69e-01 100.0% 57.1%
8jx6A02 2.30.30.780 Mainly Beta › Roll › SH3 type barrels. › 0.52 41.0 3.53e-01 85.7% 92.2%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3462586 4970.1.1.0 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.77 52.0 5.88e-01 73.0% 100.0%
5018474 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.76 67.0 5.57e-01 100.0% 59.1%
3296105 5076.1.1.1 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.75 53.0 3.39e-01 74.6% 18.7%
1180306 632.20.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › TsiV3 protein › TsiV3 protein › TsiV3 0.75 66.0 5.79e-01 100.0% 81.1%
4172979 101.11.1.1 ↗ alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.75 53.0 4.53e-01 74.6% 52.0%
3500097 310.2.1.32 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › Oxidored-like 0.72 51.0 4.55e-01 74.6% 52.2%
3606883 1128.1.1.0 ↗ alpha bundles › LYR protein › LYR protein › LYR protein 0.71 63.0 5.25e-01 100.0% 57.3%
3412881 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.71 61.0 5.74e-01 100.0% 91.3%
5012522 5058.1.1.2 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st 0.71 50.0 4.46e-01 74.6% 55.6%
3282145 618.2.1.1 ↗ a+b complex topology › DNA mimic protein DMP12-like › Immunity protein CdiI › Immunity protein CdiI › DUF6247 0.70 53.0 5.59e-01 92.1% 94.5%
3224794 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.70 48.0 4.58e-01 74.6% 61.3%
5030379 622.4.1.0 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.69 56.0 4.99e-01 88.9% 81.1%
3414602 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.69 56.0 5.35e-01 100.0% 76.0%
3461641 5076.2.1.0 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ 0.68 60.0 4.22e-01 100.0% 91.2%
3258488 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.68 48.0 4.06e-01 73.0% 77.0%
None — 0.68 49.0 3.23e-01 77.8% 19.6%
3643902 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.68 48.0 3.82e-01 74.6% 37.7%
3654606 1128.1.1.1 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.67 57.0 5.43e-01 98.4% 84.0%
3370201 101.1.8.17 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › PF26576 0.67 48.0 4.02e-01 77.8% 43.5%
4201591 166.1.1.1 ↗ alpha superhelices › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › DXPR_C 0.66 57.0 4.95e-01 98.4% 65.0%
4028766 181.1.1.1 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N 0.66 55.0 4.96e-01 96.8% 87.8%
3743101 1128.1.1.1 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.65 56.0 5.37e-01 100.0% 84.0%
4988487 547.1.1.1 ↗ alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.65 46.0 4.39e-01 77.8% 67.1%
3235302 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.65 45.0 2.95e-01 73.0% 76.9%
3611263 1128.1.1.1 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.64 53.0 4.87e-01 100.0% 74.4%
3394510 1128.1.1.0 ↗ alpha bundles › LYR protein › LYR protein › LYR protein 0.64 54.0 5.10e-01 100.0% 83.7%
4344927 1128.1.1.2 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR_2 0.63 54.0 5.31e-01 100.0% 91.4%
3958254 3317.1.1.0 ↗ alpha arrays › KorB C-terminal domain-like › KorB C-terminal domain › KorB C-terminal domain 0.63 51.0 4.98e-01 100.0% 82.9%
5072135 2498.1.1.10 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M48 0.63 45.0 3.26e-01 77.8% 25.6%
4144086 166.1.1.1 ↗ alpha superhelices › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › DXPR_C 0.63 54.0 4.67e-01 98.4% 64.0%
3219902 1128.1.1.2 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR_2 0.62 52.0 4.91e-01 100.0% 78.8%
4239 5069.1.3.1 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › Sdh_cyt 0.62 55.0 4.35e-01 100.0% 79.1%
3803849 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.61 53.0 4.96e-01 100.0% 88.7%
3993765 627.1.1.0 ↗ alpha complex topology › VPS9 domain › VPS9 domain › VPS9 domain 0.61 50.0 4.57e-01 90.5% 69.4%
3538104 7061.1.1.1 ↗ few secondary structure elements › VWF C8-3 module › VWF C8-3 module › VWF C8-3 module › C8 0.61 49.0 4.69e-01 100.0% 77.3%
3636670 109.3.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.60 51.0 3.76e-01 100.0% 58.3%
5053994 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.59 48.0 4.69e-01 100.0% 92.0%
3998578 142.1.1.41 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › RabGAP-TBC 0.58 48.0 4.85e-01 100.0% 100.0%
3478006 198.1.1.1 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_2 0.57 38.0 3.72e-01 74.6% 60.0%
3495566 109.4.1.2761 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › IBN_N, TPR_XPO7, PF28490 0.57 50.0 2.74e-01 98.4% 5.2%
3830164 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.57 40.0 2.74e-01 82.5% 18.8%
3409567 3755.3.1.324 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF725 0.56 45.0 3.53e-01 98.4% 97.6%
3247097 216.1.1.17 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › Med15_C 0.56 48.0 4.02e-01 100.0% 69.6%
4158555 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.55 48.0 3.20e-01 100.0% 31.9%
5044619 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.55 45.0 4.03e-01 96.8% 90.5%
2337277 110.1.1.5 ↗ alpha arrays › DEATH domain › DEATH domain › DEATH domain › CENP-N 0.54 46.0 4.33e-01 98.4% 95.0%