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NC_028983.1__YP_009216026.1__AVV46_gp028__00028

Bact-Vir

NC_028983.1__YP_009216026.1__AVV46_gp028__00028

Identity

Accession:
NC_028983 ↗
Kingdom:
phage

Quality

65.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Siminovitchvirus› Bacillus_phage_Shanette

TaxID: 1296656

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 medium residues 32-86
PDB
Domain cluster: representative
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1vq8V00 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.86 71.0 6.69e-01 92.7% 75.4%
3pyoY00 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.84 66.0 6.36e-01 90.9% 75.8%
4hwdD00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.83 67.0 5.64e-01 92.7% 53.3%
2cazD00 6.10.140.820 Special › Helix non-globular › Helix Hairpins › 0.80 67.0 6.56e-01 92.7% 85.0%
1lvfB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.79 65.0 5.25e-01 92.7% 48.1%
3icxA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.76 64.0 5.73e-01 92.7% 66.7%
1wjzA00 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.76 52.0 4.39e-01 92.7% 42.6%
1urfA00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.75 63.0 5.54e-01 92.7% 71.6%
5z7qA00 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.74 63.0 4.38e-01 94.5% 38.1%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.74 60.0 5.96e-01 90.9% 91.4%
3jcuZ00 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.73 63.0 6.08e-01 92.7% 83.6%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.73 60.0 5.15e-01 92.7% 56.8%
1yc9A01 1.20.1600.10 Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.73 60.0 3.72e-01 92.7% 15.3%
3ecqA07 6.10.140.660 Special › Helix non-globular › Helix Hairpins › 0.73 41.0 4.42e-01 92.7% 64.4%
1wp7A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.72 60.0 5.77e-01 92.7% 79.7%
2c42A06 3.40.50.970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains 0.72 62.0 3.66e-01 94.5% 48.8%
4kc9A02 1.20.120.1750 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.72 60.0 4.00e-01 94.5% 25.8%
3lnnB03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.72 59.0 5.60e-01 92.7% 95.5%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.71 60.0 4.59e-01 90.9% 79.5%
7ymiZ01 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.71 60.0 5.96e-01 92.7% 87.9%
3hl1A02 6.10.140.1530 Special › Helix non-globular › Helix Hairpins › 0.71 57.0 5.46e-01 92.7% 76.9%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.70 57.0 5.43e-01 94.5% 76.1%
4mk3A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.68 57.0 4.57e-01 96.4% 85.2%
3wd6A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.68 56.0 4.49e-01 96.4% 78.0%
2x9xA04 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 54.0 5.52e-01 90.9% 90.7%
1qu3A04 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.68 54.0 3.98e-01 89.1% 85.3%
3r84A00 1.10.287.3490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.67 56.0 4.94e-01 94.5% 88.9%
5dn6J00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.66 49.0 4.45e-01 90.9% 59.5%
2q0oC00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.66 53.0 4.68e-01 94.5% 61.6%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.66 54.0 5.06e-01 92.7% 76.5%
2wdqC00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.66 55.0 4.40e-01 100.0% 81.0%
1skvA00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.65 54.0 5.15e-01 92.7% 98.4%
2i7uA00 6.10.250.1010 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.63 47.0 4.54e-01 92.7% 72.6%
1n5uA02 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.59 45.0 3.93e-01 90.9% 52.2%
4asvA00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.58 42.0 3.84e-01 80.0% 55.7%
1t07A00 1.10.3880.10 Mainly Alpha › Orthogonal Bundle › YggX-like › Fe(II) trafficking protein YggX 0.55 43.0 3.81e-01 85.5% 88.9%
8d8lN01 1.10.287.1480 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.54 42.0 3.74e-01 92.7% 57.0%
2ds2D01 1.10.110.10 Mainly Alpha › Orthogonal Bundle › Hydrophobic Seed Protein › Plant lipid-transfer and hydrophobic proteins 0.54 44.0 4.44e-01 92.7% 87.7%
2prrA02 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.53 44.0 3.40e-01 92.7% 66.9%
1hwyA01 1.10.287.140 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.53 41.0 4.25e-01 90.9% 90.2%
3s4lA00 1.10.3210.30 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › 0.50 39.0 2.75e-01 89.1% 87.3%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4052416 192.4.1.1 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.86 69.0 6.06e-01 92.7% 60.0%
4084570 192.4.1.1 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.85 69.0 6.30e-01 92.7% 68.6%
4095063 5086.1.1.69 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › Med29 0.84 63.0 4.92e-01 92.7% 40.0%
3281235 192.4.1.1 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.83 67.0 6.00e-01 92.7% 64.0%
3355246 192.1.1.0 ↗ alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain 0.82 70.0 6.12e-01 92.7% 63.7%
2636645 192.15.1.2 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Mod_r 0.81 69.0 6.44e-01 92.7% 76.1%
4083492 192.4.1.1 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.81 65.0 6.19e-01 92.7% 73.8%
5054079 192.4.1.0 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.80 72.0 6.27e-01 98.2% 82.5%
2831866 192.4.1.1 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.79 61.0 4.73e-01 92.7% 38.8%
3279544 7516.1.1.2 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.78 66.0 4.11e-01 92.7% 17.3%
3725377 192.15.1.44 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › DUF6604 0.76 65.0 5.48e-01 94.5% 56.7%
4959390 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.76 66.0 6.04e-01 94.5% 77.1%
3944501 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 0.75 61.0 5.44e-01 92.7% 62.5%
5045310 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.75 63.0 5.79e-01 92.7% 77.1%
3968484 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.74 62.0 5.71e-01 92.7% 77.1%
3619662 192.12.1.3 ↗ alpha bundles › Long alpha-hairpin › Transcriptional repressor TraM › Transcriptional repressor TraM › DUF747 0.74 54.0 4.84e-01 92.7% 55.0%
3718462 3922.1.1.0 ↗ 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 0.74 61.0 5.12e-01 92.7% 64.2%
3387484 375.1.9.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Zinc-nucleated domain of serine integrase 0.73 61.0 5.31e-01 94.5% 62.4%
3971539 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.73 60.0 5.47e-01 92.7% 73.3%
3628378 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.71 58.0 4.16e-01 92.7% 30.9%
3616362 109.46.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Helical domain in TOPLESS related protein 2 (TPR2) › Helical domain in TOPLESS related protein 2 (TPR2) › CTLH 0.70 55.0 4.13e-01 89.1% 70.7%
5060491 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 0.69 57.0 4.48e-01 92.7% 43.3%
3890044 3922.1.1.0 ↗ 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 0.69 58.0 5.39e-01 92.7% 89.7%
3473827 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 0.69 55.0 5.44e-01 92.7% 85.0%
4946455 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.68 54.0 4.86e-01 92.7% 62.5%
3968144 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.68 54.0 5.17e-01 92.7% 76.9%
4203104 3560.1.1.7 ↗ a+b complex topology › Mediator of RNA polymerase II transcription subunit 8 › Mediator of RNA polymerase II transcription subunit 8 › Mediator of RNA polymerase II transcription subunit 8 › Med10 0.68 57.0 4.14e-01 90.9% 37.9%
3784566 604.1.1.191 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF29057 0.67 52.0 4.41e-01 92.7% 49.0%
1893629 160.1.1.3 ↗ alpha superhelices › C-terminal domain of alpha and beta subunits of F1 ATP synthase › C-terminal domain of alpha and beta subunits of F1 ATP synthase › C-terminal domain of alpha and beta subunits of F1 ATP synthase › T3SS_ATPase_C 0.66 57.0 5.07e-01 96.4% 88.6%
3708367 192.7.1.4 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Val_tRNA-synt_C 0.64 52.0 4.88e-01 94.5% 75.7%
3528259 3922.1.1.0 ↗ 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 0.64 51.0 4.86e-01 94.5% 78.3%
4952853 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 0.62 50.0 4.15e-01 87.3% 50.5%
5063047 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.62 48.0 4.09e-01 92.7% 50.0%