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SR-VP_0-2_scaffold_141_6534022_prodigal-single.1__X__X__00335

Bact-Vir

SR-VP_0-2_scaffold_141_6534022_prodigal-single.1__X__X__00335

Identity

Kingdom:
phage

Quality

95.9 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 3-77
PDB
Domain cluster: representative
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 39.0 3.97e-01 98.7% 56.2%
4hehA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.70 46.0 4.48e-01 100.0% 61.4%
1zbtA01 6.10.140.1950 Special › Helix non-globular › Helix Hairpins › 0.67 44.0 4.29e-01 86.7% 61.4%
1aueB00 1.20.120.150 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › FKBP12-rapamycin binding domain 0.65 52.0 4.92e-01 89.3% 95.7%
1e3pA02 1.10.10.400 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain 0.65 50.0 4.85e-01 100.0% 73.5%
2d2sA01 1.20.58.1210 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Exo84p, N-terminal helical domain 0.65 43.0 3.75e-01 94.7% 44.8%
3l4aA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.65 51.0 4.40e-01 86.7% 95.0%
2b1eA01 1.20.58.1150 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 48.0 4.61e-01 97.3% 69.8%
1st6A04 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.64 50.0 4.32e-01 85.3% 100.0%
3llkA02 1.20.120.310 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › ERV/ALR sulfhydryl oxidase domain 0.63 47.0 3.80e-01 78.7% 55.9%
2e5yA02 1.20.5.440 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › ATP synthase delta/epsilon subunit, C-terminal domain 0.63 38.0 4.67e-01 80.0% 100.0%
2gxaE01 1.10.10.510 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Zinc finger, large T-antigen D1 domain 0.62 46.0 4.67e-01 97.3% 83.6%
3dteA01 1.10.10.2910 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.61 53.0 4.59e-01 97.3% 94.0%
4nooB00 1.10.8.1160 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.61 41.0 3.75e-01 85.3% 53.7%
1v9mA03 1.20.1690.10 Mainly Alpha › Up-down Bundle › V-type ATP synthase subunit C fold › V-type ATP synthase subunit C domain 0.60 47.0 4.34e-01 85.3% 97.9%
1aepA00 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.60 42.0 3.44e-01 76.0% 71.2%
2e9xB02 1.20.58.1020 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 35.0 3.07e-01 98.7% 39.4%
2mtqA00 1.20.58.130 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 43.0 4.36e-01 96.0% 79.5%
2rbdA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.59 45.0 3.47e-01 89.3% 40.0%
3we9A00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.58 49.0 3.51e-01 97.3% 41.7%
4wzxA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.58 42.0 4.22e-01 93.3% 77.3%
3fblA00 1.20.58.800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 42.0 4.09e-01 100.0% 70.7%
4k35A03 1.10.287.1170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › glycoside hydrolase family 81 endo-[beta] glucanase 0.57 41.0 4.22e-01 97.3% 80.0%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.57 43.0 4.25e-01 85.3% 76.6%
1or7B01 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.56 43.0 4.07e-01 85.3% 75.5%
3mvpA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 49.0 3.97e-01 100.0% 53.7%
1pjrA04 1.10.486.10 Mainly Alpha › Orthogonal Bundle › PCRA; domain 4 › PCRA; domain 4 0.56 42.0 3.49e-01 82.7% 100.0%
1wp7A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.55 38.0 4.08e-01 98.7% 82.8%
1iurA01 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.55 40.0 4.31e-01 100.0% 95.2%
2c0kB00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.55 42.0 3.46e-01 86.7% 87.2%
2nutB01 1.20.120.730 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Sec23/Sec24 helical domain 0.54 44.0 3.49e-01 88.0% 60.1%
4zqeA03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.54 38.0 3.55e-01 74.7% 76.0%
5u1aL00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.54 45.0 3.45e-01 90.7% 57.2%
4hr1A00 1.20.1270.410 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.54 40.0 3.39e-01 86.7% 49.2%
1fpoC02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.53 46.0 4.31e-01 96.0% 76.9%
3ieeA02 1.20.58.820 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Uncharacterised protein PF12889, C-terminal DUF3829 0.53 43.0 3.90e-01 89.3% 92.2%
2vmaA00 1.20.81.30 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › Type II secretion system (T2SS), domain F 0.53 44.0 3.89e-01 100.0% 83.6%
3fseB02 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.53 44.0 3.56e-01 90.7% 68.1%
3u3iA02 1.20.58.1110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 45.0 4.03e-01 100.0% 66.7%
2bvlA01 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 39.0 3.74e-01 96.0% 67.4%
2pusA04 6.10.140.300 Special › Helix non-globular › Helix Hairpins › 0.52 38.0 3.39e-01 100.0% 53.7%
1lk3A00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.52 44.0 3.73e-01 100.0% 78.7%
1dqeA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.52 43.0 3.71e-01 100.0% 97.1%
4m70I00 1.20.5.4130 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.52 41.0 3.68e-01 85.3% 89.8%
2v0xA01 1.10.287.3160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.52 45.0 3.42e-01 93.3% 65.5%
2crbA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.52 38.0 3.56e-01 92.0% 61.9%
1h6gA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.51 44.0 3.70e-01 93.3% 58.9%
1zs3A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.51 42.0 3.26e-01 90.7% 59.1%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.51 41.0 3.89e-01 85.3% 88.6%
3h3mA00 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.51 41.0 3.92e-01 96.0% 75.3%
3jyhA02 1.20.120.980 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Serine carboxypeptidase S28, SKS domain 0.50 41.0 3.35e-01 92.0% 94.6%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3273910 622.4.1.0 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.72 50.0 4.28e-01 86.7% 47.0%
3816224 101.1.17.2 ↗ alpha arrays › HTH › HTH › FF domain › FF 0.71 50.0 5.20e-01 100.0% 81.4%
4975860 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.70 39.0 3.75e-01 94.7% 48.2%
3974221 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.69 55.0 4.56e-01 85.3% 96.2%
4677046 3625.1.1.1 ↗ alpha bundles › CRISPR RNA silencing complex Cmr2 subunit second helical domain › CRISPR RNA silencing complex Cmr2 subunit second helical domain › CRISPR RNA silencing complex Cmr2 subunit second helical domain › Cmr2_hel_dom2 0.68 58.0 5.81e-01 96.0% 100.0%
4442882 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 0.67 52.0 4.87e-01 100.0% 67.8%
3997012 604.30.1.1 ↗ alpha bundles › Spectrin repeat-like › Gamma-secretase subunit PEN-2 › Gamma-secretase subunit PEN-2 › PEN-2 0.66 45.0 4.14e-01 97.3% 54.7%
4034220 632.2.1.5 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › DUF1542 0.66 40.0 4.17e-01 85.3% 65.7%
4034224 632.19.1.3 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A › DUF1542 0.66 39.0 4.00e-01 89.3% 60.0%
4927047 632.19.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A 0.66 39.0 3.94e-01 89.3% 58.7%
4116078 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 0.65 49.0 4.98e-01 100.0% 81.3%
4232417 2004.1.1.87 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.65 49.0 3.12e-01 81.3% 33.2%
4123602 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 0.64 49.0 4.63e-01 100.0% 67.8%
4033046 632.19.1.3 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A › DUF1542 0.64 39.0 3.96e-01 86.7% 61.3%
4033037 632.19.1.3 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A › DUF1542 0.63 38.0 3.93e-01 89.3% 64.3%
3900014 3156.1.1.18 ↗ beta sandwiches › Cupredoxin-like › Cupredoxin-related › Cupredoxin-related › CLPTM1 0.63 36.0 3.01e-01 98.7% 33.6%
5026743 601.30.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Helical bundle domain in hypothetical protein PH1320 › Helical bundle domain in hypothetical protein PH1320 › NOG1_N 0.61 47.0 3.85e-01 85.3% 86.0%
4091718 2004.1.1.442 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_21 0.61 46.0 3.02e-01 84.0% 33.4%
5076876 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.60 44.0 4.33e-01 90.7% 71.2%
3756 601.20.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Apolipophorin-III › Apolipophorin-III 0.60 42.0 3.44e-01 76.0% 71.2%
3834034 5067.1.1.13 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › ALMT 0.60 54.0 4.14e-01 100.0% 73.3%
3805429 3562.1.1.33 ↗ alpha bundles › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › ALMT 0.60 53.0 4.18e-01 100.0% 75.6%
4249597 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 0.59 49.0 4.41e-01 100.0% 65.7%
4030778 632.2.1.5 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › DUF1542 0.59 36.0 3.60e-01 86.7% 58.7%
3718498 604.6.1.0 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.58 48.0 4.55e-01 96.0% 74.4%
4986459 159.1.2.0 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › MazG-related 0.56 44.0 3.44e-01 82.7% 52.9%
1281062 632.18.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › hypothetical protein PA2901 › hypothetical protein PA2901 › DUF4398 0.56 34.0 3.13e-01 100.0% 46.9%
4596030 5086.1.1.218 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › MSP1_C 0.56 40.0 3.55e-01 100.0% 51.8%
4934784 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.56 37.0 3.57e-01 94.7% 60.0%
4309656 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 0.56 38.0 3.41e-01 84.0% 53.0%
3594615 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.55 41.0 4.10e-01 96.0% 75.0%
4027056 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.55 48.0 3.86e-01 96.0% 50.7%
3929572 6155.1.1.2 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop 0.54 47.0 4.50e-01 97.3% 81.2%
3719395 6110.1.1.1 ↗ alpha superhelices › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › DHC_N2 0.54 42.0 2.73e-01 86.7% 19.5%
5045018 5065.1.1.1 ↗ alpha bundles › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › ABC-3 0.54 41.0 2.90e-01 88.0% 78.2%
4018653 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.53 48.0 3.80e-01 98.7% 64.7%
4518896 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 0.53 45.0 3.79e-01 90.7% 56.7%
3414399 5086.1.1.106 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › DUF725 0.53 40.0 3.03e-01 85.3% 35.3%
3740645 604.6.1.1 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT 0.53 47.0 4.40e-01 96.0% 78.9%
5021813 5058.1.1.101 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › DUF1622 0.53 40.0 3.58e-01 85.3% 58.1%
3731805 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.52 43.0 3.75e-01 98.7% 97.7%
3847975 604.12.1.9 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › ATG1-like_MIT2 0.52 48.0 4.38e-01 100.0% 88.4%
4180833 225.1.1.0 ↗ a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 0.51 38.0 2.58e-01 86.7% 22.7%
4180109 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 0.50 40.0 3.87e-01 97.3% 76.7%