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rifoxyb1_full_scaffold_4_prodigal-single.1__X__X__00147

Bact-Vir

rifoxyb1_full_scaffold_4_prodigal-single.1__X__X__00147

Identity

Kingdom:
phage

Quality

75.0 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 high residues 29-50_71-139
PDB
Domain cluster: representative
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3l4gB03 3.30.56.10 Alpha Beta › 2-Layer Sandwich › Phenylalanyl-tRNA Synthetase; Chain B, domain 1 › 0.64 43.0 4.72e-01 84.6% 85.1%
1kn6A00 3.30.70.850 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Peptidase S8, pro-domain 0.64 47.0 5.13e-01 92.3% 97.3%
1sqgA03 3.30.70.1170 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sun protein; domain 3 0.62 40.0 4.59e-01 91.2% 100.0%
2z30B00 3.30.70.80 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Peptidase S8 propeptide/proteinase inhibitor I9 0.62 41.0 4.65e-01 93.4% 93.8%
8gf5C01 3.30.70.470 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 51.0 4.42e-01 92.3% 95.8%
3qfhA01 3.30.70.80 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Peptidase S8 propeptide/proteinase inhibitor I9 0.61 40.0 4.45e-01 95.6% 92.3%
2j0wA04 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.60 46.0 4.88e-01 90.1% 100.0%
1yj7B01 3.30.70.1530 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hypothetical protein rpa1041 0.60 39.0 4.27e-01 89.0% 85.9%
5wpjA02 3.30.70.420 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hydroxymethylglutaryl-CoA reductase, class I/II, NAD/NADP-binding domain 0.59 51.0 4.84e-01 95.6% 95.4%
7rsfA01 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 51.0 4.64e-01 95.6% 96.7%
1usmA00 3.30.1360.20 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Transcriptional coactivator/pterin dehydratase 0.59 43.0 4.58e-01 87.9% 92.2%
1mwqA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.58 49.0 4.83e-01 94.5% 90.0%
4clfA02 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.57 51.0 4.07e-01 100.0% 66.3%
5macE01 3.30.70.150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RuBisCO large subunit, N-terminal domain 0.57 49.0 4.32e-01 97.8% 77.0%
5uejA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 49.0 4.56e-01 94.5% 93.9%
2kjwA00 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.57 44.0 4.38e-01 93.4% 80.2%
4mmoA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 48.0 3.98e-01 94.5% 95.2%
3afgB01 3.30.70.80 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Peptidase S8 propeptide/proteinase inhibitor I9 0.57 40.0 4.06e-01 95.6% 77.0%
2hfvA01 3.30.70.790 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › UreE, C-terminal domain 0.57 43.0 4.56e-01 94.5% 97.4%
1ctfA00 3.30.1390.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L30; Chain: A, › Ribosomal protein L7/L12, C-terminal domain/Adaptor protein ClpS 0.57 40.0 4.40e-01 93.4% 98.5%
1vbkA01 3.30.70.1510 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › THUMP domain-like 0.57 46.0 4.82e-01 96.7% 97.6%
2phcB01 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.56 43.0 4.45e-01 87.9% 89.2%
5oyhD00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.56 49.0 3.96e-01 98.9% 68.6%
2fyxA00 3.30.70.1290 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Transposase IS200-like 0.56 48.0 4.33e-01 97.8% 83.8%
5wm1A02 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.56 47.0 4.50e-01 97.8% 80.7%
3mggA02 6.10.140.1580 Special › Helix non-globular › Helix Hairpins › 0.56 33.0 3.33e-01 70.3% 58.4%
2ahoB03 3.30.70.1130 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › EIF_2_alpha 0.56 46.0 4.66e-01 92.3% 97.7%
4lowA00 3.30.1360.20 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Transcriptional coactivator/pterin dehydratase 0.56 41.0 4.30e-01 87.9% 86.9%
2f5gA00 3.30.70.1290 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Transposase IS200-like 0.55 46.0 4.17e-01 95.6% 71.5%
3znuA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.54 42.0 4.24e-01 94.5% 85.1%
2ctjA00 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.54 38.0 3.77e-01 86.8% 71.6%
2a6mA00 3.30.70.1290 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Transposase IS200-like 0.54 45.0 4.10e-01 96.7% 73.8%
1lq9A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 44.0 4.21e-01 96.7% 90.2%
4kr6A01 3.30.2130.30 Alpha Beta › 2-Layer Sandwich › VC0802-like › 0.52 46.0 3.80e-01 100.0% 89.5%
2od6C00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 43.0 4.15e-01 94.5% 87.9%
4ozjA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 42.0 4.05e-01 95.6% 77.9%
5b08A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 43.0 4.24e-01 95.6% 94.0%
3e54A00 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.52 39.0 3.30e-01 91.2% 46.5%
6c6uN00 3.30.70.940 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › NusG, N-terminal domain 0.51 44.0 4.35e-01 98.9% 90.8%
3gfaA00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.51 42.0 3.37e-01 93.4% 74.0%
3nwgA02 3.30.70.1710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › BMC (bacterial microcompartment) domain 0.51 43.0 4.19e-01 97.8% 86.1%
2wp4B00 3.90.1170.40 Alpha Beta › Alpha-Beta Complex › Aldehyde Oxidoreductase; domain 3 › Molybdopterin biosynthesis MoaE subunit 0.51 40.0 3.64e-01 89.0% 78.8%
1q2lA03 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.50 43.0 3.29e-01 97.8% 77.4%
1x7vA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 42.0 4.15e-01 95.6% 89.8%
2a10D00 3.30.70.1710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › BMC (bacterial microcompartment) domain 0.50 42.0 4.14e-01 97.8% 85.3%
ECOD (62)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3190610 320.1.1.1 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.65 37.0 3.46e-01 78.0% 45.5%
3538625 304.7.1.4 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors › S8_pro-domain 0.65 55.0 5.73e-01 93.4% 100.0%
3690405 101.1.9.5 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › B5 0.64 43.0 4.33e-01 86.8% 68.9%
3781327 327.11.2.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.64 38.0 4.46e-01 83.5% 88.3%
4129940 101.1.9.5 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › B5 0.63 42.0 4.35e-01 86.8% 72.9%
4886730 304.28.2.1 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB TolC docking domain › ACR_tran 0.63 54.0 5.03e-01 96.7% 91.3%
5048905 101.1.9.20 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › PhetRS_B1 0.63 43.0 4.51e-01 85.7% 80.0%
3174787 320.1.1.1 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.62 37.0 3.69e-01 82.4% 56.8%
4461165 101.1.2.773 ↗ alpha arrays › HTH › HTH › winged helix domain › YaaC 0.61 44.0 4.53e-01 89.0% 80.0%
4947881 101.1.9.153 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › tRNA_synthFbeta 0.61 42.0 4.31e-01 84.6% 75.3%
3285016 304.4.1.3 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › YCII 0.60 48.0 4.90e-01 94.5% 88.9%
4132191 304.48.1.10 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › IMS 0.60 51.0 4.64e-01 94.5% 77.6%
4932337 101.1.9.5 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › B5 0.60 41.0 4.20e-01 84.6% 74.1%
5000232 304.7.1.0 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.60 40.0 4.33e-01 95.6% 85.3%
3265799 304.19.1.3 ↗ a+b two layers › Alpha-beta plaits › eIF-2-alpha, C-terminal domain › eIF-2-alpha, C-terminal domain › PF30773 0.59 46.0 4.83e-01 96.7% 98.8%
4148845 304.28.1.1 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › ACR_tran 0.59 51.0 4.98e-01 96.7% 93.0%
3280378 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.58 51.0 4.24e-01 98.9% 79.4%
3684127 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.58 48.0 4.95e-01 97.8% 100.0%
4027647 3122.1.1.0 ↗ a+b complex topology › MESD › MESD › MESD 0.58 49.0 4.54e-01 95.6% 73.0%
4942376 305.2.1.1 ↗ a+b two layers › DCoH-like › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › Pterin_4a 0.58 44.0 4.23e-01 86.8% 69.1%
5261 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.58 47.0 4.76e-01 96.7% 91.2%
5065164 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.58 44.0 4.56e-01 94.5% 89.4%
3930715 327.11.2.11 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1_3 0.57 48.0 4.34e-01 95.6% 89.2%
4379259 304.48.1.6 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_A 0.57 49.0 4.67e-01 96.7% 95.4%
4177964 304.7.1.2 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors › Inhibitor_I9 0.57 44.0 4.56e-01 97.8% 90.6%
4211647 323.1.1.5 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Condensation 0.56 44.0 3.27e-01 86.8% 78.4%
5004583 304.10.1.1 ↗ a+b two layers › Alpha-beta plaits › RuBisCO, large subunit, small (N-terminal) domain › RuBisCO, large subunit, small (N-terminal) domain › RuBisCO_large_N 0.56 47.0 4.47e-01 97.8% 92.2%
4948625 2002.1.1.1 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › RuBisCO_large 0.56 47.0 3.15e-01 95.6% 25.1%
3947661 304.48.1.48 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GGDEF_2 0.56 48.0 3.97e-01 98.9% 72.0%
1347544 304.151.1.2 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain of receptor-type protein tyrosine phosphatase › Ferredoxin-like domain of receptor-type protein tyrosine phosphatase › EPCAM-Trop-2_C 0.56 47.0 4.25e-01 94.5% 87.4%
5053356 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.56 47.0 4.67e-01 96.7% 91.6%
3738021 304.8.1.105 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › PF30953 0.56 46.0 4.28e-01 100.0% 70.8%
4210141 304.48.1.10 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › IMS 0.55 47.0 4.37e-01 96.7% 76.7%
4032118 304.55.2.1 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like › Y1_Tnp 0.55 48.0 4.23e-01 98.9% 74.3%
3402258 304.8.1.49 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › R1_ABCA1 0.55 47.0 4.60e-01 95.6% 96.0%
4600602 304.120.1.6 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › ThiI_fer 0.55 42.0 4.47e-01 94.5% 96.2%
4016257 304.6.1.3 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › BBE 0.55 47.0 3.42e-01 97.8% 38.5%
3375771 305.2.1.1 ↗ a+b two layers › DCoH-like › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › Pterin_4a 0.55 43.0 4.15e-01 86.8% 74.3%
5116 304.55.2.1 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like › Y1_Tnp 0.55 46.0 4.17e-01 95.6% 71.5%
5023321 304.17.1.2 ↗ a+b two layers › Alpha-beta plaits › N-utilization substance G protein NusG, N-terminal domain › N-utilization substance G protein NusG, N-terminal domain › Spt5-NGN 0.54 44.0 4.48e-01 98.9% 91.1%
4507915 304.7.1.6 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors › Tk-SP_N-pro 0.54 42.0 4.00e-01 95.6% 69.1%
3838293 304.55.2.1 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like › Y1_Tnp 0.54 46.0 4.18e-01 95.6% 80.8%
5072891 241.6.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Arp2/3 complex subunits › Arp2/3 complex subunits 0.54 43.0 3.61e-01 89.0% 63.6%
4974971 304.12.1.17 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › GYD 0.54 43.0 4.28e-01 95.6% 86.3%
134566 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.54 45.0 4.49e-01 96.7% 92.7%
4367328 305.2.1.1 ↗ a+b two layers › DCoH-like › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › Pterin_4a 0.54 39.0 3.82e-01 87.9% 71.0%
3191211 304.8.1.21 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_9 0.53 43.0 4.46e-01 94.5% 98.8%
3408002 304.8.1.49 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › R1_ABCA1 0.53 43.0 4.13e-01 95.6% 76.4%
3167249 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 39.0 3.74e-01 83.5% 67.6%
5038034 304.120.1.6 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › ThiI_fer 0.53 44.0 4.51e-01 93.4% 98.9%
3634393 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.53 43.0 4.19e-01 96.7% 83.0%
4134668 327.19.1.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › DNA mismatch repair protein MutL regulatory subdomain › DNA mismatch repair protein MutL regulatory subdomain › MutL_C 0.52 35.0 3.50e-01 87.9% 65.3%
3444485 304.120.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI 0.52 42.0 4.29e-01 91.2% 100.0%
4928095 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.52 43.0 3.98e-01 94.5% 72.3%
3481250 327.19.1.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › DNA mismatch repair protein MutL regulatory subdomain › DNA mismatch repair protein MutL regulatory subdomain 0.52 40.0 3.70e-01 86.8% 64.2%
3628041 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 44.0 4.11e-01 100.0% 98.3%
3800979 327.11.2.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.51 39.0 3.96e-01 87.9% 84.4%
3284008 304.4.1.57 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › MFS_3 0.51 43.0 4.15e-01 95.6% 86.7%
5026235 304.165.1.5 ↗ a+b two layers › Alpha-beta plaits › Uncharacterized protein Ta1207 › Uncharacterized protein Ta1207 › HVO_A0563_N 0.51 42.0 3.68e-01 93.4% 95.2%
5024216 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.50 42.0 3.49e-01 95.6% 51.4%
3492262 327.19.1.2 ↗ a+b two layers › Alpha-lytic protease prodomain-like › DNA mismatch repair protein MutL regulatory subdomain › DNA mismatch repair protein MutL regulatory subdomain › Mlh1_C 0.50 39.0 3.82e-01 85.7% 93.0%
3575847 327.11.2.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.50 42.0 3.96e-01 95.6% 75.7%