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rifoxyd1_full_scaffold_5_prodigal-single.1__X__X__00160

Bact-Vir

rifoxyd1_full_scaffold_5_prodigal-single.1__X__X__00160

Identity

Kingdom:
phage

Quality

84.7 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 8-67
PDB
Domain cluster: representative
CATH (55)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3lnnB03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.95 67.0 6.42e-01 73.3% 98.5%
2jdiG01 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.91 64.0 6.37e-01 73.3% 77.0%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.90 66.0 6.20e-01 76.7% 71.8%
3layF00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.88 68.0 6.15e-01 81.7% 69.2%
3tklB01 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.87 65.0 6.46e-01 78.3% 75.8%
7ymiZ01 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.86 64.0 6.53e-01 78.3% 100.0%
4l8jA04 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.86 64.0 6.50e-01 78.3% 91.5%
3qo8A01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.86 60.0 4.91e-01 78.3% 41.5%
2wmmA01 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 0.86 61.0 6.68e-01 75.0% 100.0%
1urfA00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.85 62.0 5.55e-01 76.7% 63.0%
4h63K00 1.10.287.3490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.83 61.0 5.13e-01 76.7% 50.0%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.82 61.0 6.20e-01 78.3% 81.0%
2pusA04 6.10.140.300 Special › Helix non-globular › Helix Hairpins › 0.82 59.0 4.85e-01 76.7% 45.4%
1cxzB00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.81 60.0 5.25e-01 78.3% 54.7%
1wpaA01 6.10.140.340 Special › Helix non-globular › Helix Hairpins › 0.80 62.0 5.15e-01 81.7% 52.5%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.80 59.0 5.49e-01 78.3% 63.5%
3mq1A01 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.79 58.0 5.04e-01 78.3% 69.6%
3l9fA02 6.10.140.1570 Special › Helix non-globular › Helix Hairpins › 0.79 58.0 5.25e-01 78.3% 66.7%
1zhcA00 6.10.280.50 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.78 69.0 6.33e-01 96.7% 77.6%
3t9oB00 1.20.120.30 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Aspartate receptor, ligand-binding domain 0.77 71.0 5.54e-01 100.0% 57.5%
2b0hA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.76 69.0 5.33e-01 100.0% 60.9%
1cunA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 55.0 4.63e-01 78.3% 53.9%
2y39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.75 67.0 5.39e-01 96.7% 70.9%
3uumA00 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.75 54.0 4.33e-01 78.3% 47.5%
3qweA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.74 64.0 4.20e-01 98.3% 74.2%
2okuA00 1.20.120.470 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Acyl-CoA dehydrogenase, C-terminal domain 0.74 64.0 5.11e-01 100.0% 59.0%
1dowA00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.74 66.0 4.50e-01 100.0% 35.1%
4abxA02 6.10.140.1090 Special › Helix non-globular › Helix Hairpins › 0.73 53.0 4.69e-01 78.3% 58.6%
2dq0A01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.71 58.0 4.88e-01 91.7% 91.6%
4p9tA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.71 59.0 4.89e-01 100.0% 60.0%
1bhaA00 1.10.287.170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.71 53.0 5.13e-01 81.7% 86.6%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.70 51.0 5.01e-01 80.0% 80.6%
5c8aA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.70 49.0 4.56e-01 75.0% 60.3%
2ewfA02 1.20.1270.310 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.70 60.0 5.44e-01 100.0% 71.6%
4dlqA02 1.25.40.610 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.70 50.0 4.31e-01 75.0% 61.1%
4y9jA01 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.70 59.0 4.53e-01 98.3% 62.4%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.70 52.0 4.62e-01 81.7% 55.7%
4ioeA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.70 52.0 4.66e-01 81.7% 59.8%
3fxdB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 50.0 5.07e-01 78.3% 89.7%
3e0sA00 1.40.20.10 Mainly Alpha › Alpha solenoid › CHAD domain › CHAD domain 0.69 57.0 3.70e-01 96.7% 29.1%
3jsbA01 1.20.1440.300 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › RNA-directed RNA polymerase L, helical domain 0.68 41.0 3.71e-01 73.3% 43.2%
1zbtA01 6.10.140.1950 Special › Helix non-globular › Helix Hairpins › 0.68 54.0 4.99e-01 93.3% 85.5%
2mtqA00 1.20.58.130 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 49.0 4.63e-01 78.3% 65.8%
2lw1A00 1.10.287.380 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain 0.67 48.0 4.32e-01 76.7% 71.8%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.66 47.0 4.79e-01 78.3% 80.0%
4dxwA02 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.65 52.0 4.21e-01 86.7% 83.9%
2yqyA00 1.20.120.450 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › dinb family like domain 0.65 54.0 4.33e-01 96.7% 87.3%
4fm3A00 1.20.1270.390 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.63 53.0 4.61e-01 100.0% 60.0%
4okvE00 6.10.140.1890 Special › Helix non-globular › Helix Hairpins › 0.59 44.0 4.37e-01 81.7% 81.5%
4yjwA00 1.20.120.930 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Uncharacterised protein PF12889, N-terminal DUF3829 0.59 48.0 3.76e-01 98.3% 66.7%
2m6uA00 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.59 50.0 4.63e-01 100.0% 82.9%
4cs9C00 1.20.120.1350 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Pneumovirus matrix protein 2 (M2), zinc-binding domain 0.57 48.0 3.58e-01 95.0% 34.5%
1gt0D00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.57 44.0 4.06e-01 83.3% 84.8%
1ezjA01 1.10.287.320 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Viral phosphoprotein oligmorisation site domain 0.57 43.0 4.30e-01 100.0% 80.6%
2rasA01 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 44.0 3.20e-01 100.0% 64.4%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3436926 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.92 69.0 6.35e-01 78.3% 63.5%
3253283 192.5.1.14 ↗ alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat › HR1_TOCA 0.91 68.0 5.72e-01 78.3% 49.5%
3167364 2004.1.1.481 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_29 0.91 68.0 3.98e-01 78.3% 11.2%
3623143 192.4.1.0 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.90 67.0 5.84e-01 78.3% 55.3%
3982740 5086.1.1.190 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › OEP 0.88 66.0 4.39e-01 78.3% 41.0%
3598167 3755.1.1.0 ↗ alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related 0.88 68.0 4.93e-01 81.7% 32.7%
3393840 2006.1.4.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › XPG_N,XPG_I 0.88 64.0 4.16e-01 76.7% 21.3%
4030051 2004.1.1.480 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_21, AAA_29 0.87 66.0 3.93e-01 80.0% 14.4%
4000281 192.20.1.0 ↗ alpha bundles › Long alpha-hairpin › helical hairpin domain in transcriptional anti-activator ExsD › helical hairpin domain in transcriptional anti-activator ExsD 0.87 67.0 5.52e-01 81.7% 49.0%
3984016 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 0.85 67.0 5.73e-01 83.3% 55.6%
3837404 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.85 66.0 4.96e-01 81.7% 37.7%
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 0.84 62.0 3.96e-01 78.3% 18.1%
3243897 3684.1.1.0 ↗ alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.84 76.0 5.70e-01 100.0% 54.3%
3233670 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.83 76.0 5.62e-01 100.0% 52.4%
5056427 3843.1.1.38 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › T4SS_pilin 0.83 61.0 4.96e-01 78.3% 43.6%
4883924 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 0.83 61.0 5.54e-01 78.3% 58.7%
4949863 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 61.0 5.66e-01 78.3% 62.7%
4930182 2498.1.1.10 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M48 0.83 61.0 4.17e-01 78.3% 26.2%
3807124 2004.1.1.430 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran, ABC_tran_Xtn 0.82 64.0 3.58e-01 81.7% 8.2%
3360612 284.1.1.1 ↗ a+b two layers › FKBP-like › FKBP-like › FKBP-like › FKBP_C 0.82 58.0 4.50e-01 73.3% 54.2%
4429833 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.82 63.0 5.05e-01 81.7% 44.5%
4473366 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 0.82 64.0 5.89e-01 83.3% 66.7%
3678035 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 0.81 60.0 5.70e-01 78.3% 71.4%
5049284 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.80 59.0 4.65e-01 78.3% 41.7%
3987966 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 56.0 4.58e-01 78.3% 41.8%
5077093 4323.1.1.0 ↗ alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C 0.77 57.0 4.40e-01 80.0% 63.0%
3417932 109.4.1.128 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MIF4G_like_2 0.77 59.0 3.66e-01 81.7% 31.4%
3869913 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 0.75 53.0 3.19e-01 76.7% 10.8%
56778 150.3.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine 0.75 53.0 4.27e-01 76.7% 40.5%
3969893 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 0.73 54.0 5.34e-01 80.0% 87.7%
3593736 192.7.1.0 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.73 54.0 4.65e-01 81.7% 65.0%
4601944 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 52.0 4.87e-01 76.7% 98.7%
4944765 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.73 54.0 3.18e-01 80.0% 26.5%
3386973 5086.1.1.84 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_MFP_RND 0.72 51.0 4.54e-01 76.7% 96.7%
4525341 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 51.0 4.95e-01 83.3% 70.0%
3971758 5086.1.1.84 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_MFP_RND 0.68 49.0 4.48e-01 80.0% 57.6%
4006721 325.1.7.50 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › PF25876 0.68 49.0 4.48e-01 80.0% 57.6%
3987006 5086.1.1.93 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_EMRA 0.68 50.0 3.88e-01 81.7% 35.7%
4934439 2004.1.1.198 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.68 48.0 2.89e-01 78.3% 10.6%
3917098 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.68 58.0 3.41e-01 100.0% 28.0%
3239952 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 0.67 50.0 2.98e-01 81.7% 11.0%
4010479 325.1.7.48 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › PF25885 0.67 49.0 3.93e-01 81.7% 38.5%
3471267 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.65 50.0 2.95e-01 86.7% 38.2%
3233029 3711.1.1.24 ↗ alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › DUF4473 0.59 52.0 4.63e-01 100.0% 69.4%