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rifcsphigho2_12_scaffold_16_prodigal-single.1__X__X__00265

Bact-Vir

rifcsphigho2_12_scaffold_16_prodigal-single.1__X__X__00265

Identity

Kingdom:
phage

Quality

80.1 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 3-42
PDB
Domain cluster: representative
CATH (52)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3anwA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.89 78.0 5.59e-01 100.0% 35.4%
1yvwA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.88 78.0 5.91e-01 100.0% 43.5%
2i9cA01 1.25.40.70 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Phosphatidylinositol 3-kinase, accessory domain (PIK) 0.87 75.0 5.44e-01 100.0% 36.0%
1vmgA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.87 76.0 6.00e-01 100.0% 48.8%
3kwoA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.86 75.0 5.04e-01 100.0% 27.5%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.86 77.0 6.36e-01 100.0% 59.4%
2hroA02 1.10.274.10 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › PtsI, HPr-binding domain 0.86 72.0 5.00e-01 100.0% 29.7%
4x5mA00 1.20.1280.290 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.85 73.0 5.73e-01 100.0% 47.7%
2gs4A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.84 73.0 4.88e-01 100.0% 25.9%
4rngC00 1.20.1280.290 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.84 71.0 5.69e-01 100.0% 50.6%
3ilxA02 1.10.287.2170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.84 67.0 6.56e-01 92.5% 81.8%
4u1cA01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.84 72.0 6.65e-01 100.0% 76.9%
1hr5A00 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 0.83 71.0 6.80e-01 100.0% 97.9%
1fpoC02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.83 71.0 5.51e-01 100.0% 45.1%
3ltoA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.83 71.0 4.94e-01 100.0% 29.9%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.83 71.0 5.83e-01 100.0% 54.7%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.83 71.0 5.00e-01 100.0% 33.1%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.82 70.0 5.80e-01 100.0% 54.7%
3k7xA00 1.50.10.20 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.82 70.0 4.09e-01 100.0% 11.5%
3k59A06 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.82 70.0 6.75e-01 100.0% 85.1%
2c41C01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.82 69.0 4.69e-01 100.0% 27.5%
2ra1A03 1.20.58.770 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.82 67.0 5.85e-01 97.5% 60.3%
2ahfA00 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.80 69.0 3.98e-01 100.0% 10.6%
6he1B01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.80 68.0 5.94e-01 100.0% 62.5%
2hjmA01 1.20.120.460 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › protein pf1176 like 0.80 70.0 5.46e-01 100.0% 47.7%
1z0pA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.80 67.0 5.64e-01 100.0% 60.3%
3fxdC00 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 0.79 63.0 5.96e-01 100.0% 74.0%
1orjD00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.78 67.0 4.74e-01 100.0% 44.8%
1aueB00 1.20.120.150 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › FKBP12-rapamycin binding domain 0.78 63.0 4.97e-01 100.0% 43.6%
2ptfB02 1.20.58.290 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hypothetical membrane protein ta0354_69_121. 0.78 60.0 5.51e-01 92.5% 64.9%
1wkbA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.77 64.0 4.66e-01 100.0% 33.9%
2xqyA01 3.30.500.50 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › 0.77 64.0 4.24e-01 100.0% 23.6%
2kw6A00 6.10.140.1300 Special › Helix non-globular › Helix Hairpins › 0.77 66.0 5.66e-01 100.0% 61.5%
4dmvA01 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 64.0 5.07e-01 97.5% 52.9%
6ygiB01 1.10.4090.10 Mainly Alpha › Orthogonal Bundle › Hepatitis B viral capsid (hbcag) fold › Viral capsid, core domain supefamily, Hepatitis B virus 0.76 61.0 4.15e-01 100.0% 25.3%
2yi9A05 1.20.1270.270 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › VP1, C-terminal extension domain 0.75 58.0 4.80e-01 100.0% 46.8%
1kaeA03 1.20.5.1300 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.74 58.0 5.30e-01 90.0% 85.5%
1kfdA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.74 59.0 4.99e-01 100.0% 52.1%
2nr4A02 1.20.58.290 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hypothetical membrane protein ta0354_69_121. 0.73 61.0 5.54e-01 100.0% 72.4%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 59.0 5.06e-01 100.0% 57.7%
3if8B02 1.20.58.730 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 57.0 4.31e-01 97.5% 36.0%
4e4eA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.71 57.0 4.95e-01 100.0% 59.2%
4g09A03 1.20.5.1300 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.71 56.0 5.14e-01 90.0% 85.5%
1f7uA02 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.71 60.0 4.31e-01 100.0% 93.6%
2f93B00 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.68 56.0 5.31e-01 100.0% 80.4%
4q5nA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.67 53.0 4.05e-01 100.0% 36.6%
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 0.67 57.0 4.40e-01 95.0% 44.3%
1sxjD03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.67 53.0 4.26e-01 100.0% 42.9%
2vm6A00 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.64 54.0 3.75e-01 100.0% 31.2%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.62 50.0 4.55e-01 100.0% 66.1%
2pjqA01 1.10.472.50 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like 0.60 52.0 4.07e-01 100.0% 44.9%
2dsjA01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.60 47.0 4.05e-01 100.0% 53.7%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3976258 616.1.1.0 ↗ alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain 0.94 85.0 7.55e-01 100.0% 72.7%
4682578 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.93 84.0 5.17e-01 100.0% 19.0%
3907481 7005.1.1.0 ↗ a+b duplicates or obligate multimers › LUBAC-tethering domain › LUBAC-tethering domain › LUBAC-tethering domain 0.90 76.0 7.02e-01 97.5% 74.0%
3938192 633.22.1.0 ↗ alpha bundles › Bromodomain-like › Vitamin K epoxide reductase (VKOR) › Vitamin K epoxide reductase (VKOR) 0.89 77.0 5.06e-01 100.0% 25.0%
3738041 192.5.1.1 ↗ alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat › HR1 0.88 78.0 6.05e-01 100.0% 47.1%
3965106 605.1.1.4 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_3 0.88 77.0 6.25e-01 100.0% 53.3%
3296414 192.29.1.168 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › DUF641 0.88 76.0 6.34e-01 100.0% 57.1%
3973803 109.3.1.18 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › DUF2157 0.88 75.0 4.55e-01 100.0% 15.7%
3886395 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.88 77.0 5.06e-01 100.0% 25.6%
5016327 605.1.1.2 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › H-kinase_dim 0.87 76.0 6.32e-01 100.0% 58.6%
3971809 192.8.1.424 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › H-kinase_dim 0.87 75.0 6.83e-01 100.0% 74.5%
4949979 605.1.1.2 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › H-kinase_dim 0.87 75.0 6.46e-01 100.0% 61.5%
3996799 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.86 76.0 5.56e-01 100.0% 39.0%
3692454 192.1.1.29 ↗ alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain › Es2 0.86 75.0 6.80e-01 100.0% 74.5%
4472442 192.11.1.1 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.86 74.0 7.45e-01 100.0% 100.0%
3968962 604.9.1.29 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › DUF2339 0.86 74.0 4.67e-01 100.0% 20.5%
5023828 159.1.1.1 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 › MazG 0.85 75.0 5.79e-01 100.0% 46.6%
4942636 3390.1.1.0 ↗ extended segments › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT 0.85 74.0 7.20e-01 100.0% 93.3%
5029393 6155.1.1.0 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.85 72.0 5.64e-01 100.0% 46.1%
5007364 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 0.84 72.0 6.59e-01 100.0% 74.5%
3394485 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.84 73.0 5.71e-01 100.0% 48.2%
4959463 6155.1.1.2 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop 0.83 72.0 5.79e-01 100.0% 51.2%
5043430 6155.1.1.0 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.83 70.0 5.81e-01 100.0% 54.7%
3944950 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 0.83 70.0 6.09e-01 100.0% 67.7%
3791287 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.83 70.0 5.45e-01 100.0% 46.7%
3722548 192.6.1.8 ↗ alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Es2 0.82 66.0 6.16e-01 90.0% 78.0%
5055868 6155.1.1.2 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop 0.82 68.0 5.68e-01 100.0% 56.0%
4988092 601.29.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › TM1646-like › TM1646-like 0.81 67.0 5.41e-01 100.0% 47.1%
3952558 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 0.81 68.0 4.97e-01 100.0% 34.8%
3798925 6155.1.1.0 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.81 67.0 5.28e-01 95.0% 61.2%
4685 192.16.1.1 ↗ alpha bundles › Long alpha-hairpin › SPy1572-like › SPy1572-like › DUF1912 0.80 67.0 5.64e-01 100.0% 60.3%
3343787 109.4.1.1374 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, TPR_24 0.80 67.0 4.47e-01 100.0% 24.4%
5013782 6155.1.1.0 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.80 68.0 5.61e-01 100.0% 54.7%
4310284 2498.1.1.143 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › DUF3318 0.80 66.0 4.27e-01 100.0% 20.5%
4025161 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.80 67.0 5.45e-01 100.0% 52.5%
4936733 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.80 67.0 4.86e-01 100.0% 36.7%
3282614 109.3.1.381 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › DUF2339 0.79 67.0 4.20e-01 100.0% 18.6%
3245192 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.78 66.0 5.24e-01 100.0% 48.2%
3239689 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.78 66.0 4.91e-01 100.0% 39.0%
3719058 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.77 64.0 5.17e-01 100.0% 47.1%
3663959 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.77 64.0 4.54e-01 100.0% 50.0%
4051951 605.2.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 0.75 63.0 4.96e-01 100.0% 86.7%
3307959 3835.1.1.3 ↗ alpha bundles › Type I hyperactive antifreeze protein › Type I hyperactive antifreeze protein › Type I hyperactive antifreeze protein › DUF842 0.73 63.0 5.36e-01 97.5% 61.5%