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NC_055769.1__YP_010098717.1__KNU13_gp17__00017

Bact-Vir

NC_055769.1__YP_010098717.1__KNU13_gp17__00017

Identity

Accession:
NC_055769 ↗
Kingdom:
phage

Quality

76.9 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 35-123
PDB
Domain cluster: representative
CATH (61)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1wleA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.84 61.0 5.55e-01 75.3% 58.8%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.82 55.0 6.21e-01 75.3% 91.0%
1xzpA02 1.20.120.430 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › tRNA modification GTPase MnmE domain 2 0.81 74.0 5.95e-01 100.0% 64.5%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.79 54.0 5.17e-01 70.8% 85.3%
3icxA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.78 57.0 6.12e-01 75.3% 92.0%
1y4cA03 1.20.120.660 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain 0.78 70.0 6.42e-01 98.9% 77.0%
1tqgA00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.77 61.0 5.77e-01 96.6% 72.4%
2hroA02 1.10.274.10 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › PtsI, HPr-binding domain 0.76 50.0 4.39e-01 73.0% 46.9%
3rc3A05 1.20.58.1080 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 61.0 5.57e-01 97.8% 66.4%
4xvxA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.76 54.0 4.58e-01 75.3% 52.4%
2oo2A00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.76 44.0 4.71e-01 70.8% 67.1%
4lwsA00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.76 54.0 5.25e-01 75.3% 79.0%
4wzxA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.75 57.0 6.11e-01 89.9% 94.7%
1uurA01 1.20.58.240 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › STAT; domain 1 0.75 66.0 6.19e-01 98.9% 99.1%
1wpaA01 6.10.140.340 Special › Helix non-globular › Helix Hairpins › 0.75 55.0 5.29e-01 76.4% 93.9%
4ioeA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.75 54.0 5.50e-01 75.3% 82.8%
2o8pA00 1.20.190.20 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › 14-3-3 domain 0.74 62.0 4.67e-01 92.1% 60.3%
1i6zA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.74 66.0 5.77e-01 100.0% 81.5%
3eslA01 1.20.58.2070 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 58.0 6.27e-01 88.8% 98.7%
2rd0B00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.73 52.0 4.47e-01 74.2% 73.4%
1l8nA03 3.90.1330.10 Alpha Beta › Alpha-Beta Complex › Alpha-d-glucuronidase, C-terminal Domain › Alpha-glucuronidase, C-terminal domain 0.73 62.0 4.65e-01 91.0% 80.5%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.73 51.0 5.73e-01 75.3% 95.6%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.72 52.0 5.27e-01 75.3% 90.9%
3fseB02 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.72 62.0 5.28e-01 94.4% 93.8%
4h63H01 1.20.58.1710 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 53.0 5.77e-01 77.5% 95.8%
2uuiA00 1.20.120.550 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Membrane associated eicosanoid/glutathione metabolism-like domain 0.72 50.0 4.15e-01 74.2% 41.9%
1orjD00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.71 63.0 5.60e-01 97.8% 68.8%
2fcwA00 1.20.81.10 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain 0.71 51.0 4.84e-01 75.3% 64.2%
1yz5B00 1.20.190.20 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › 14-3-3 domain 0.71 61.0 4.54e-01 95.5% 57.2%
4mh6A00 1.10.287.1700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.71 51.0 4.20e-01 75.3% 48.4%
2mpkA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.71 51.0 5.48e-01 78.7% 90.5%
1nafA02 1.20.58.160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.71 58.0 5.99e-01 91.0% 100.0%
3r2qA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.71 61.0 5.61e-01 93.3% 82.3%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 50.0 5.38e-01 75.3% 90.4%
1e52A00 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.70 44.0 5.23e-01 75.3% 100.0%
2jqqA00 1.20.58.1240 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 58.0 4.84e-01 91.0% 64.3%
3qavA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.69 61.0 5.26e-01 97.8% 95.7%
2rbdA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.69 62.0 5.20e-01 98.9% 96.0%
5j1gA00 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 62.0 4.63e-01 100.0% 49.6%
1chuA03 1.20.58.100 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal domain 0.69 57.0 5.79e-01 96.6% 90.9%
2qe7G01 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.69 49.0 4.84e-01 75.3% 87.6%
4w4kA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.69 49.0 5.13e-01 74.2% 91.5%
4y6cA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.69 49.0 3.67e-01 92.1% 31.1%
1ya0A01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.69 58.0 4.44e-01 93.3% 66.0%
2l3lA01 1.20.58.1250 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Tubulin Binding Cofactor C, N-terminal domain 0.68 57.0 5.45e-01 97.8% 77.4%
3pjaJ01 1.20.58.190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 1 0.68 59.0 5.23e-01 96.6% 72.5%
1wrdA00 1.20.58.160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 60.0 5.82e-01 98.9% 95.9%
3etvA01 1.10.287.3290 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.68 45.0 4.62e-01 80.9% 71.4%
2ap3A00 1.20.120.570 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YkyA-like 0.68 59.0 4.69e-01 100.0% 63.5%
5lnkA00 1.20.58.1610 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › NADH:ubiquinone/plastoquinone oxidoreductase, chain 3 0.67 46.0 4.25e-01 75.3% 54.8%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.67 47.0 5.07e-01 74.2% 86.5%
3t6gB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.67 59.0 5.18e-01 100.0% 72.4%
5dn6J00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.66 46.0 4.93e-01 74.2% 86.5%
3agtA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.66 54.0 4.75e-01 89.9% 62.4%
3a8pA02 6.10.140.680 Special › Helix non-globular › Helix Hairpins › 0.66 54.0 5.07e-01 92.1% 78.1%
3qkyA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.66 49.0 3.57e-01 79.8% 29.5%
2hjmA01 1.20.120.460 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › protein pf1176 like 0.63 46.0 4.74e-01 89.9% 80.2%
3l1nA02 1.20.1280.140 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.59 47.0 4.84e-01 87.6% 93.1%
2hxoA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.52 40.0 3.48e-01 87.6% 51.4%
3rkoG00 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.51 43.0 4.18e-01 100.0% 84.0%
3u3iA02 1.20.58.1110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 39.0 3.77e-01 86.5% 74.1%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4298288 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.81 59.0 5.03e-01 75.3% 92.6%
4142346 5086.1.1.87 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › ING 0.81 57.0 5.29e-01 75.3% 59.1%
3712573 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 0.81 58.0 4.89e-01 74.2% 52.9%
3487846 3291.1.1.0 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.80 58.0 4.86e-01 75.3% 49.7%
3570403 3291.1.1.0 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.80 58.0 5.11e-01 75.3% 57.6%
3732306 2004.1.1.366 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › NPHP3_N 0.78 57.0 3.76e-01 75.3% 23.6%
4974533 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 0.78 57.0 4.87e-01 75.3% 96.3%
3786627 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.77 61.0 3.96e-01 92.1% 20.3%
3458224 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.77 69.0 6.40e-01 97.8% 82.7%
4283760 1203.1.2.7 alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 › GNVR 0.77 56.0 4.77e-01 76.4% 52.1%
3946576 5086.1.1.66 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › GNVR 0.77 56.0 4.83e-01 76.4% 54.1%
3241724 109.4.1.587 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Mon2_C 0.76 69.0 4.43e-01 100.0% 22.7%
3731168 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.76 63.0 6.00e-01 89.9% 76.2%
3481121 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.76 68.0 6.10e-01 100.0% 87.2%
3593230 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.74 61.0 5.22e-01 88.8% 65.7%
5070360 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.74 53.0 4.41e-01 75.3% 71.6%
4968652 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 0.73 54.0 5.23e-01 77.5% 76.0%
4680407 3684.1.1.0 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.72 64.0 5.16e-01 98.9% 66.3%
3593236 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.72 63.0 5.87e-01 96.6% 81.8%
4235354 109.4.1.3214 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Tmemb_161AB 0.72 65.0 4.56e-01 100.0% 86.5%
5063778 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 0.72 51.0 3.21e-01 74.2% 29.8%
3801875 604.1.1.135 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › DUF155 0.71 63.0 4.59e-01 100.0% 71.0%
4092397 109.4.1.1448 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_1, TPR_7, TPR_10, TPR_12, TPR_MalT 0.71 50.0 3.17e-01 75.3% 14.2%
5045256 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.71 62.0 6.16e-01 98.9% 96.8%
4935342 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 0.70 60.0 4.66e-01 95.5% 81.0%
3756502 5069.1.1.73 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › Tmemb_161AB 0.70 62.0 4.21e-01 100.0% 91.3%
3960659 150.8.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE › PPE 0.70 49.0 4.43e-01 74.2% 54.2%
4169065 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.69 49.0 3.37e-01 73.0% 97.3%
3580283 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.69 58.0 5.96e-01 93.3% 100.0%
5014075 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.69 45.0 4.52e-01 76.4% 65.6%
3474317 601.3.1.4 alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain › PTPLA 0.67 57.0 4.43e-01 97.8% 42.9%
4200933 6155.1.1.1 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.67 55.0 5.40e-01 94.4% 85.3%
3418543 5054.1.1.71 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › PTPLA 0.66 56.0 4.33e-01 96.6% 41.9%
3267295 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.65 56.0 4.36e-01 98.9% 86.7%
3550167 109.4.1.3198 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › ARM_CUL7_CUL9, PF26718 0.65 54.0 3.52e-01 93.3% 70.0%
3349750 3567.1.1.75 a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › PTPLA 0.65 56.0 4.32e-01 98.9% 42.4%
3879758 192.29.1.50 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › PTPLA 0.65 54.0 4.24e-01 96.6% 43.3%
3973839 610.4.1.1 alpha arrays › ERP29 C domain-like › YqeY domain › YqeY domain › YqeY 0.64 50.0 4.20e-01 82.0% 75.7%
3440194 601.3.1.4 alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain › PTPLA 0.64 55.0 4.24e-01 98.9% 72.6%
3774198 601.3.1.4 alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain › PTPLA 0.63 54.0 4.11e-01 95.5% 44.7%
4159687 304.58.1.0 a+b two layers › Alpha-beta plaits › FepE-like › FepE-like 0.63 44.0 3.13e-01 75.3% 22.8%
3171940 5054.1.1.71 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › PTPLA 0.60 52.0 4.01e-01 97.8% 75.2%
3256571 6155.1.1.1 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.59 46.0 4.58e-01 93.3% 83.2%