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NC_041911.1__YP_009598773.1__FDH28_gp080__00080

Bact-Vir

NC_041911.1__YP_009598773.1__FDH28_gp080__00080

Identity

Accession:
NC_041911 ↗
Kingdom:
phage

Quality

94.0 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 1-39_71-100_170-272
PDB
Domain cluster: representative
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF11251.15 best DUF3050 81.9 7.80e-23 58.7% 38.6%
PF11251.15 DUF3050 30.9 2.80e-07 26.7% 13.4%
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1rtwB00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.71 65.0 6.11e-01 97.7% 100.0%
3chtA00 1.10.620.20 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A 0.69 54.0 4.43e-01 81.4% 74.1%
1j77A00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.66 59.0 5.61e-01 94.8% 94.0%
1wu3I00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.64 45.0 4.71e-01 72.1% 84.5%
1u7lA02 1.20.1460.10 Mainly Alpha › Up-down Bundle › subunit c (vma5p) of the yeast v-atpase, domain 2 › subunit c (vma5p) of the yeast v-atpase, domain 2 0.64 40.0 3.95e-01 98.3% 58.5%
4m70I00 1.20.5.4130 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.62 35.0 4.38e-01 100.0% 88.9%
1b5lA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.60 42.0 4.50e-01 71.5% 84.2%
3wmeA01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.58 41.0 3.35e-01 73.3% 79.9%
3rrkA02 1.20.1460.20 Mainly Alpha › Up-down Bundle › subunit c (vma5p) of the yeast v-atpase, domain 2 › 0.56 37.0 3.90e-01 80.8% 72.9%
6v9zA02 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.56 40.0 3.23e-01 73.3% 78.5%
2h8oA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.51 38.0 3.25e-01 76.7% 59.4%
2rgnB01 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.51 36.0 3.46e-01 72.1% 89.2%
4f4cA01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.51 47.0 3.07e-01 100.0% 90.4%
4px7A00 1.20.144.10 Mainly Alpha › Up-down Bundle › Vanadium-containing Chloroperoxidase; domain 1 › Phosphatidic acid phosphatase type 2/haloperoxidase 0.51 46.0 4.03e-01 97.7% 86.5%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3921752 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 37.0 3.37e-01 94.2% 40.9%
5012567 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.64 33.0 3.56e-01 94.8% 56.7%
3290219 1079.1.1.8 alpha complex topology › Transmembrane reductase CcdA › Transmembrane reductase CcdA › Transmembrane reductase CcdA › LysE 0.63 35.0 3.36e-01 100.0% 45.5%
4283760 1203.1.2.7 alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 › GNVR 0.61 43.0 4.74e-01 89.5% 87.1%
4008609 1203.1.2.7 alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 › GNVR 0.61 42.0 4.58e-01 91.3% 84.3%
5079525 1075.4.1.0 alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold 0.59 42.0 3.42e-01 73.3% 81.9%
3466990 4323.1.1.8 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 › NET2A 0.58 37.0 3.55e-01 95.3% 55.0%
3237547 150.1.1.31 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Tweety 0.57 45.0 3.92e-01 80.8% 82.4%
4176785 1075.5.1.2 alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › MurJ 0.54 47.0 4.36e-01 93.6% 79.1%
5039182 5059.1.1.1 alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA 0.53 39.0 3.31e-01 75.6% 75.4%
5025612 1075.5.1.4 alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › Polysacc_synt 0.53 47.0 4.41e-01 94.8% 82.4%
5019371 1075.5.1.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › MatE 0.51 44.0 3.84e-01 93.0% 63.4%
3602675 1075.5.1.27 alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › MatE, Polysacc_synt 0.51 44.0 3.81e-01 93.0% 63.3%
5065783 1075.5.1.4 alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › Polysacc_synt 0.51 44.0 3.80e-01 93.0% 62.6%
3655293 622.4.1.0 alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.51 39.0 3.72e-01 80.8% 78.5%
5041814 1075.5.1.4 alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › Polysacc_synt 0.51 44.0 4.22e-01 93.6% 85.6%
4987816 1075.5.1.0 alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter 0.50 43.0 3.94e-01 93.0% 72.6%
3495843 1203.1.2.0 alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 0.50 45.0 4.35e-01 97.1% 100.0%
5026210 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.50 40.0 3.86e-01 84.3% 72.5%
D2 medium residues 40-70_101-169
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF11251.15 best DUF3050 38.2 1.70e-09 33.0% 12.2%
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1tfeA02 1.10.286.20 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › 0.71 28.0 4.11e-01 79.0% 82.2%
1oedA00 1.20.58.390 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Neurotransmitter-gated ion-channel transmembrane domain 0.65 50.0 4.70e-01 84.0% 96.1%
2lsgA00 1.20.58.1280 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › DNA repair protein Rev1, C-terminal domain 0.65 41.0 4.16e-01 98.0% 63.9%
4hhxA00 1.20.81.30 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › Type II secretion system (T2SS), domain F 0.63 46.0 4.64e-01 97.0% 76.0%
2rn7A01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.62 31.0 3.71e-01 91.0% 69.7%
2whnA00 1.20.81.30 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › Type II secretion system (T2SS), domain F 0.62 47.0 4.62e-01 97.0% 74.5%
1bc0A03 1.10.220.10 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Annexin 0.60 35.0 3.73e-01 93.0% 65.1%
1j30A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.59 43.0 3.80e-01 75.0% 66.0%
1v9vA01 1.20.1480.20 Mainly Alpha › Up-down Bundle › hypothetical protein mp506/mpn330, domain 1 › MAST3 pre-PK domain-like 0.58 40.0 4.15e-01 98.0% 76.8%
3geeA02 1.20.120.430 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › tRNA modification GTPase MnmE domain 2 0.56 42.0 3.67e-01 83.0% 90.5%
2ra1A01 1.20.58.790 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 39.0 3.97e-01 73.0% 87.8%
2hz8A00 1.20.120.660 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain 0.55 43.0 4.13e-01 85.0% 98.3%
6a3kA00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.54 41.0 3.83e-01 83.0% 93.8%
7tzoA01 1.10.1070.11 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › Phosphatidylinositol 3-/4-kinase, catalytic domain 0.54 43.0 3.70e-01 91.0% 89.1%
4id0A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.53 39.0 3.84e-01 78.0% 94.6%
3ripA02 1.20.120.1900 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Gamma-tubulin complex, C-terminal domain 0.53 48.0 3.48e-01 100.0% 42.3%
1u3dA02 1.25.40.80 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.53 36.0 3.26e-01 94.0% 50.7%
2hxiB02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 40.0 3.67e-01 81.0% 92.5%
6nmnA02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.53 44.0 4.14e-01 94.0% 96.9%
2jbwA01 1.20.1440.110 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase 0.52 37.0 3.66e-01 100.0% 69.9%
1yq3C02 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.52 38.0 3.75e-01 82.0% 71.3%
4ar9A02 1.10.390.20 Mainly Alpha › Orthogonal Bundle › Neutral Protease; domain 2 › 0.51 31.0 2.84e-01 82.0% 41.5%
3rlfF04 1.10.3720.10 Mainly Alpha › Orthogonal Bundle › MetI-like fold › MetI-like 0.51 44.0 3.41e-01 98.0% 100.0%
3lcnB00 1.10.340.40 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Nuclear abundant poly(A) RNA-bind protein 2, N-terminal domain 0.51 35.0 3.58e-01 82.0% 73.2%
1ykhA00 6.10.140.200 Special › Helix non-globular › Helix Hairpins › 0.51 30.0 3.16e-01 81.0% 63.2%
3tuiA00 1.10.3720.10 Mainly Alpha › Orthogonal Bundle › MetI-like fold › MetI-like 0.50 39.0 3.13e-01 85.0% 87.5%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3927853 633.6.1.31 alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › PF28643 0.69 52.0 3.60e-01 81.0% 50.4%
4935514 5060.2.1.0 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain 0.67 56.0 4.60e-01 99.0% 50.6%
4017831 4970.1.1.0 alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.66 31.0 2.64e-01 97.0% 27.7%
4948760 5060.2.1.0 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain 0.66 49.0 5.38e-01 91.0% 100.0%
5059222 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.65 52.0 4.90e-01 99.0% 70.8%
3970178 5060.2.1.0 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain 0.65 53.0 4.73e-01 100.0% 61.4%
3955580 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.65 53.0 5.14e-01 100.0% 79.1%
4932273 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.64 51.0 4.86e-01 99.0% 73.9%
4026662 4207.1.2.0 alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › MED7 hinge region 0.62 48.0 4.30e-01 100.0% 58.6%
3971692 5060.2.1.0 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain 0.62 52.0 4.88e-01 100.0% 73.6%
3325953 109.4.1.883 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR+PPR_2 0.62 32.0 2.75e-01 96.0% 30.6%
3335296 109.4.1.420 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR 0.61 33.0 3.37e-01 94.0% 51.0%
4677046 3625.1.1.1 alpha bundles › CRISPR RNA silencing complex Cmr2 subunit second helical domain › CRISPR RNA silencing complex Cmr2 subunit second helical domain › CRISPR RNA silencing complex Cmr2 subunit second helical domain › Cmr2_hel_dom2 0.56 37.0 4.05e-01 94.0% 88.0%
3396827 3919.1.1.2 alpha duplicates or obligate multimers › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › COMM_HN 0.56 46.0 4.52e-01 98.0% 83.6%
3694268 5069.1.3.1 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › Sdh_cyt 0.54 32.0 2.88e-01 87.0% 40.0%
3593619 603.1.1.17 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › SNARE 0.53 48.0 3.65e-01 100.0% 62.1%
3330505 603.1.1.3 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › V-SNARE 0.52 42.0 4.27e-01 100.0% 87.0%
3740928 610.1.1.1 alpha arrays › ERP29 C domain-like › ERP29 C domain-like › ERP29 C domain-like › ERp29 0.52 42.0 4.31e-01 89.0% 95.8%
3533309 603.1.1.3 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › V-SNARE 0.52 42.0 4.17e-01 100.0% 84.8%
3257419 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.52 38.0 3.59e-01 100.0% 64.2%
4474640 604.1.1.150 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF28954 0.51 46.0 4.29e-01 100.0% 92.8%
1307667 3594.1.1.1 alpha bundles › Oncogenic effector CagA domain III › Oncogenic effector CagA domain III › Oncogenic effector CagA domain III › CagA_N 0.51 45.0 4.07e-01 100.0% 98.6%
3497641 604.1.1.1 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.50 42.0 4.26e-01 97.0% 92.0%
3920960 604.8.1.2 alpha bundles › Spectrin repeat-like › Smac/diablo › Smac/diablo › Mitofilin 0.50 46.0 4.20e-01 100.0% 78.5%
3774851 604.1.1.1 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.50 44.0 3.41e-01 99.0% 44.7%
3227575 3009.1.1.0 alpha arrays › Insertion subdomain in DsbA-like › Insertion subdomain in DsbA-like › Insertion subdomain in DsbA-like 0.50 39.0 3.12e-01 85.0% 59.0%
3644241 310.2.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.50 45.0 4.19e-01 100.0% 89.6%
4567957 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.50 41.0 3.98e-01 96.0% 78.3%