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rifoxyd1_full_scaffold_5_prodigal-single.1__X__X__00274

Bact-Vir

rifoxyd1_full_scaffold_5_prodigal-single.1__X__X__00274

Identity

Kingdom:
phage

Quality

64.5 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 medium residues 1-66
PDB
D2 medium residues 67-149
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3mq1A01 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 58.0 5.60e-01 79.5% 93.5%
2dnxA00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 53.0 4.48e-01 72.3% 51.5%
2lm9A00 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.75 57.0 5.43e-01 79.5% 89.6%
1vmgA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.75 59.0 5.95e-01 89.2% 85.4%
3gnlB02 1.10.287.1890 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.73 53.0 5.82e-01 75.9% 97.1%
2yxhA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.71 58.0 5.25e-01 92.8% 65.5%
3uo2B02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.70 58.0 5.79e-01 86.7% 91.7%
3bvoA02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.70 60.0 5.97e-01 92.8% 96.5%
1yvwA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.69 59.0 5.68e-01 91.6% 83.7%
1y6xA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.69 56.0 5.54e-01 89.2% 88.5%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.68 50.0 4.65e-01 77.1% 96.1%
4rngC00 1.20.1280.290 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.68 54.0 5.47e-01 84.3% 85.5%
2rkkA01 1.25.40.270 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Vacuolar protein sorting-associated protein vta1 0.68 55.0 4.45e-01 88.0% 81.4%
2crbA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.68 49.0 4.65e-01 75.9% 69.1%
2l3lA01 1.20.58.1250 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Tubulin Binding Cofactor C, N-terminal domain 0.67 47.0 4.37e-01 73.5% 58.5%
1b5lA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.67 50.0 4.07e-01 78.3% 75.0%
1wrdA00 1.20.58.160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 51.0 4.78e-01 79.5% 79.6%
3u3iA02 1.20.58.1110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 53.0 4.90e-01 86.7% 70.4%
3fseB02 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.66 47.0 3.97e-01 74.7% 80.6%
3e0sA00 1.40.20.10 Mainly Alpha › Alpha solenoid › CHAD domain › CHAD domain 0.64 53.0 3.63e-01 91.6% 58.4%
4qndA00 1.20.1280.290 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.64 50.0 4.77e-01 84.3% 72.2%
1ki1B01 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.62 49.0 3.71e-01 85.5% 54.3%
1kpgD00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.62 54.0 3.66e-01 94.0% 31.8%
3nb2A02 1.25.40.300 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Putative secreted effector protein 0.61 38.0 3.12e-01 77.1% 33.5%
2o57A01 1.10.287.840 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Mycolic acid cyclopropane synthase domain like 0.61 50.0 4.57e-01 86.7% 91.4%
1nafA02 1.20.58.160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.60 44.0 4.38e-01 77.1% 82.4%
3ihuA02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.60 47.0 4.00e-01 86.7% 76.3%
2w9mA02 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.59 40.0 4.37e-01 80.7% 85.3%
1xwjA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.59 53.0 4.47e-01 96.4% 88.5%
3akjA02 1.10.1070.20 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › 0.59 51.0 3.88e-01 97.6% 47.8%
2odvA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 45.0 4.18e-01 86.7% 82.1%
3swhA01 1.10.357.50 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.58 45.0 3.69e-01 86.7% 56.4%
3ll7A01 1.10.10.1110 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Methyltransferase PG1098, N-terminal domain 0.57 37.0 3.89e-01 91.6% 75.0%
4gyvE00 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.56 45.0 3.39e-01 88.0% 80.5%
3u52D00 1.10.620.20 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A 0.56 50.0 3.35e-01 100.0% 50.3%
2b6cA01 1.20.1660.10 Mainly Alpha › Up-down Bundle › ARM repeat fold › Hypothetical protein (EF3068) 0.56 45.0 4.08e-01 89.2% 75.9%
2fsfB04 1.10.3060.10 Mainly Alpha › Orthogonal Bundle › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA 0.56 45.0 3.32e-01 86.7% 65.6%
3rlfG01 1.10.3720.10 Mainly Alpha › Orthogonal Bundle › MetI-like fold › MetI-like 0.54 46.0 3.29e-01 97.6% 83.9%
3piwA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.54 40.0 3.36e-01 81.9% 63.6%
3fhnA02 1.20.58.1420 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dsl1p vesicle tethering complex, Tip20p subunit, domain B 0.53 45.0 4.12e-01 97.6% 81.2%
1cnt200 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.52 42.0 3.67e-01 89.2% 88.5%
3hi0A02 3.30.420.150 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Exopolyphosphatase. Domain 2 0.52 44.0 3.45e-01 96.4% 77.6%
1b8bA00 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.51 43.0 2.67e-01 95.2% 80.3%
ECOD (54)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3516873 159.1.1.3 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 › DUF1599 0.86 75.0 7.67e-01 92.8% 98.8%
5047397 159.1.1.1 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 › MazG 0.74 58.0 5.49e-01 85.5% 71.4%
4997929 159.1.1.1 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 › MazG 0.73 60.0 5.70e-01 92.8% 76.0%
5031388 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.73 58.0 5.17e-01 84.3% 94.7%
3335074 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.73 59.0 5.02e-01 85.5% 85.4%
3709926 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.72 55.0 5.02e-01 79.5% 64.8%
3973019 159.1.1.0 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 0.72 58.0 5.33e-01 88.0% 75.5%
5043430 6155.1.1.0 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.71 55.0 5.75e-01 85.5% 90.7%
3481125 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.70 54.0 4.42e-01 80.7% 90.3%
3628598 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.70 54.0 5.56e-01 81.9% 85.0%
3513005 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.70 57.0 4.72e-01 86.7% 87.9%
4172642 603.1.1.65 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PHTF1-2_N 0.69 55.0 3.89e-01 86.7% 60.4%
3906344 6155.1.1.2 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop 0.68 54.0 5.30e-01 84.3% 82.2%
4467738 622.1.1.1 ↗ alpha bundles › YvfG-like › HSC20 (HSCB), C-terminal oligomerisation domain › HSC20 (HSCB), C-terminal oligomerisation domain › HSCB_C 0.68 61.0 5.97e-01 96.4% 96.7%
3796544 4177.1.1.2 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR 0.68 46.0 3.30e-01 71.1% 64.8%
3862034 6155.1.1.0 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.67 54.0 5.41e-01 85.5% 85.9%
3259313 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.67 56.0 4.68e-01 89.2% 98.6%
3641813 604.6.1.1 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT 0.67 51.0 4.86e-01 79.5% 78.9%
3787587 604.6.1.1 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT 0.67 51.0 4.77e-01 80.7% 81.0%
3637444 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.67 49.0 3.45e-01 77.1% 27.1%
3742136 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.66 47.0 4.95e-01 73.5% 88.0%
3437714 6155.1.1.0 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.66 52.0 4.50e-01 84.3% 60.0%
4030651 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.66 59.0 4.41e-01 100.0% 79.0%
3229732 6171.1.1.0 ↗ alpha bundles › C-terminal helical domain in Jumonji domain-containing histone demethylases › C-terminal helical domain in Jumonji domain-containing histone demethylases › C-terminal helical domain in Jumonji domain-containing histone demethylases 0.66 49.0 4.64e-01 79.5% 77.0%
3976663 3812.1.1.1 ↗ alpha bundles › Type III secretion protein YscE › Type III secretion protein YscE › Type III secretion protein YscE › T3SS_needle_E 0.65 45.0 4.99e-01 73.5% 98.5%
2988284 6110.1.1.0 ↗ alpha superhelices › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain 0.65 51.0 4.05e-01 86.7% 44.6%
3460434 5050.1.1.1 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Sugar_tr 0.65 55.0 4.79e-01 97.6% 60.0%
3780807 174.1.1.52 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › PF27925 0.65 51.0 4.42e-01 85.5% 85.4%
3221564 601.54.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › low CO2-inducible protein LCI1 › low CO2-inducible protein LCI1 0.65 54.0 4.46e-01 90.4% 90.3%
3561892 4106.1.1.0 ↗ few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack 0.64 48.0 4.10e-01 81.9% 87.6%
3740645 604.6.1.1 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT 0.64 48.0 4.73e-01 79.5% 83.3%
3281670 101.1.2.49 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR,Vir_act_alpha_C 0.64 51.0 4.01e-01 85.5% 50.0%
5028289 7516.1.1.2 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.64 44.0 2.96e-01 71.1% 21.0%
3271984 7015.1.1.0 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.64 48.0 4.02e-01 80.7% 92.4%
3700654 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 0.63 57.0 3.56e-01 97.6% 39.3%
3389596 5054.1.1.61 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › ELO 0.63 49.0 3.53e-01 83.1% 47.5%
3958088 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.63 53.0 4.02e-01 90.4% 45.2%
3528863 604.6.1.1 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT 0.63 47.0 4.30e-01 80.7% 67.0%
4633576 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.63 51.0 3.89e-01 89.2% 57.0%
3239981 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.63 51.0 4.04e-01 89.2% 77.0%
4942740 604.3.1.0 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.63 49.0 4.26e-01 83.1% 69.6%
4011171 192.15.1.126 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › DUF7607 0.63 55.0 4.95e-01 96.4% 84.3%
4110242 629.1.1.1 ↗ alpha bundles › TorD-like (Pfam 06192) › TorD-like (Pfam 06192) › TorD-like (Pfam 06192) › Nitrate_red_del 0.63 47.0 3.56e-01 80.7% 97.1%
3248284 622.4.1.0 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.62 49.0 4.54e-01 84.3% 81.0%
4370184 3758.2.1.1 ↗ alpha bundles › Bacterial hemolysins-like › Biopolymer transport protein ExbB › Biopolymer transport protein ExbB › MotA_ExbB 0.62 48.0 3.79e-01 84.3% 78.8%
3346653 604.6.1.1 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT 0.62 46.0 4.27e-01 79.5% 71.4%
3805103 604.6.1.1 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT 0.61 45.0 4.24e-01 79.5% 73.3%
5081021 5067.1.1.0 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain 0.60 50.0 4.24e-01 94.0% 78.6%
3652633 3930.1.1.0 ↗ alpha bundles › Helical bundle insertion in helicase domains › Helical bundle in Hef helicase › Helical bundle in Hef helicase 0.60 47.0 4.13e-01 86.7% 95.4%
3863014 109.23.1.3 ↗ alpha superhelices › Repetitive alpha hairpins › C-terminal domain in vacuolar protein sorting-associated protein 54 › C-terminal domain in vacuolar protein sorting-associated protein 54 › BCD_RFX 0.59 46.0 3.81e-01 84.3% 49.3%
3738276 622.1.1.1 ↗ alpha bundles › YvfG-like › HSC20 (HSCB), C-terminal oligomerisation domain › HSC20 (HSCB), C-terminal oligomerisation domain › HSCB_C 0.58 48.0 4.85e-01 92.8% 97.6%
4025583 636.1.1.0 ↗ alpha arrays › SopE-like GEF domain › SopE-like GEF domain › SopE-like GEF domain 0.57 51.0 3.91e-01 98.8% 73.2%
4208774 109.4.1.1415 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › BCD_RFX 0.57 42.0 3.60e-01 78.3% 51.1%
3906911 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.52 44.0 2.45e-01 100.0% 31.3%