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rifoxyb1_full_scaffold_4_prodigal-single.1__X__X__00050

Bact-Vir

rifoxyb1_full_scaffold_4_prodigal-single.1__X__X__00050

Identity

Kingdom:
phage

Quality

77.4 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 2-64
PDB
Domain cluster: representative
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1t4aA00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.70 63.0 5.81e-01 100.0% 98.7%
3fk4B01 3.30.70.150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RuBisCO large subunit, N-terminal domain 0.68 59.0 4.89e-01 98.4% 93.9%
2cuwA00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.67 59.0 5.40e-01 100.0% 98.8%
2zw2A00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.67 58.0 5.33e-01 100.0% 98.8%
3tx8A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.67 59.0 4.86e-01 100.0% 100.0%
1unnC00 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.66 51.0 4.28e-01 100.0% 48.6%
1uenA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.65 50.0 4.07e-01 100.0% 43.2%
1x9tA02 3.90.1620.10 Alpha Beta › Alpha-Beta Complex › adenovirus 2 penton base, domain 2 › adenovirus 2 penton base, domain 2 0.64 55.0 3.65e-01 100.0% 39.6%
2oo3A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.64 52.0 3.46e-01 100.0% 21.7%
1vwxS02 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.63 49.0 4.69e-01 100.0% 73.7%
4dezA01 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.63 56.0 4.84e-01 100.0% 79.8%
5e1qA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.62 44.0 3.92e-01 96.8% 51.0%
2muoA00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.61 44.0 4.15e-01 100.0% 61.0%
2d73A03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.61 47.0 3.92e-01 100.0% 46.9%
2nytD00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.61 49.0 3.60e-01 100.0% 31.8%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.61 47.0 4.51e-01 100.0% 73.7%
1mkfA02 2.60.40.1340 Mainly Beta › Sandwich › Immunoglobulin-like › Chemokine-binding protein M3-like 0.61 53.0 3.89e-01 100.0% 45.9%
4lbhA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.60 52.0 4.65e-01 100.0% 96.8%
1vwxS01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.60 49.0 4.78e-01 100.0% 84.5%
7o4xA01 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 52.0 4.46e-01 96.8% 83.8%
1o51A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 53.0 4.73e-01 100.0% 94.4%
4iauA01 2.60.20.10 Mainly Beta › Sandwich › Gamma-B Crystallin; domain 1 › Crystallins 0.59 34.0 3.16e-01 100.0% 46.2%
4ozjA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 52.0 4.43e-01 100.0% 79.8%
2bs2B01 3.10.20.30 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Beta-grasp domain 0.58 46.0 3.95e-01 90.5% 95.3%
1a8mA00 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.58 49.0 3.80e-01 100.0% 65.8%
4njcA00 3.10.20.730 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNAP, epsilon subunit-like 0.57 42.0 4.35e-01 100.0% 88.3%
3kg0A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 51.0 4.40e-01 100.0% 93.8%
2v9kA04 3.30.70.3190 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 49.0 4.14e-01 100.0% 96.3%
2rilA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 49.0 4.32e-01 100.0% 93.7%
2j58A03 3.30.1950.10 Alpha Beta › 2-Layer Sandwich › wza like fold › wza like domain 0.56 48.0 4.50e-01 100.0% 93.8%
1kf6B01 3.10.20.30 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Beta-grasp domain 0.56 43.0 3.80e-01 90.5% 95.2%
4ksnA00 6.20.250.80 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.55 46.0 4.61e-01 100.0% 90.8%
1p3cA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.55 42.0 3.62e-01 100.0% 51.4%
2qv6B02 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.53 45.0 3.73e-01 100.0% 74.6%
1vq8B03 3.30.1430.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L3; Chain: B; domain 2, › 0.53 38.0 3.23e-01 77.8% 45.9%
3e9tB00 2.60.40.2030 Mainly Beta › Sandwich › Immunoglobulin-like › CalX-beta domain 0.53 44.0 3.74e-01 98.4% 84.1%
4a18X01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.52 45.0 4.25e-01 100.0% 83.5%
1e57B00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.52 44.0 3.27e-01 100.0% 59.6%
3o0lA00 2.60.40.3230 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 39.0 3.39e-01 100.0% 50.5%
6jptA00 3.30.230.90 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.51 41.0 3.37e-01 88.9% 66.1%
1ex0A03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 47.0 3.80e-01 100.0% 58.8%
3fq4B01 2.60.40.2030 Mainly Beta › Sandwich › Immunoglobulin-like › CalX-beta domain 0.51 43.0 3.65e-01 100.0% 85.3%
4iyqA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 42.0 3.67e-01 100.0% 79.4%
3b49A00 3.20.80.10 Alpha Beta › Alpha-Beta Barrel › Multidrug-efflux Transporter 1 Regulator Bmrr; Chain A › Regulatory factor, effector binding domain 0.51 42.0 3.07e-01 100.0% 54.4%
2i06A01 3.50.14.10 Alpha Beta › 3-Layer(bba) Sandwich › Replication Terminator Protein (Tus); Chain A, domain 1 › Replication terminator Tus, domain 1 superfamily/Replication terminator Tus 0.50 41.0 3.01e-01 100.0% 31.3%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3508212 3115.1.1.6 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › DUF4494 0.68 56.0 5.49e-01 100.0% 84.3%
4648475 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.68 56.0 5.79e-01 100.0% 96.7%
3956448 304.100.1.1 ↗ a+b two layers › Alpha-beta plaits › PurS-like › PurS-like › PurS 0.68 60.0 5.62e-01 100.0% 96.2%
3728253 10.12.1.31 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_5 0.67 52.0 3.57e-01 100.0% 25.2%
1942603 12.1.1.22 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › GH97_C 0.67 48.0 4.06e-01 100.0% 45.0%
5010290 304.100.1.1 ↗ a+b two layers › Alpha-beta plaits › PurS-like › PurS-like › PurS 0.66 58.0 5.19e-01 100.0% 93.3%
4947546 304.100.1.0 ↗ a+b two layers › Alpha-beta plaits › PurS-like › PurS-like 0.66 57.0 5.18e-01 98.4% 98.8%
4945429 304.100.1.0 ↗ a+b two layers › Alpha-beta plaits › PurS-like › PurS-like 0.65 54.0 5.14e-01 98.4% 100.0%
3892842 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.65 51.0 5.09e-01 100.0% 84.6%
3615884 11.1.1.1189 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › XRCC1_N 0.65 53.0 5.19e-01 100.0% 82.6%
3623001 284.2.1.0 ↗ a+b two layers › FKBP-like › Chitinase insertion domain › Chitinase insertion domain 0.64 56.0 5.20e-01 98.4% 98.8%
3909339 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.64 49.0 4.22e-01 100.0% 52.0%
4021112 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.64 48.0 3.26e-01 100.0% 21.2%
3599867 302.1.1.0 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain 0.63 53.0 4.45e-01 100.0% 60.8%
3634674 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.62 49.0 3.08e-01 100.0% 15.1%
4967222 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.62 50.0 5.13e-01 100.0% 95.0%
4084879 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.62 49.0 4.56e-01 100.0% 67.1%
4990812 304.100.1.1 ↗ a+b two layers › Alpha-beta plaits › PurS-like › PurS-like › PurS 0.62 54.0 4.94e-01 100.0% 94.1%
3943661 304.5.1.13 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF3574 0.61 53.0 4.62e-01 100.0% 97.0%
5015713 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.61 50.0 5.10e-01 100.0% 98.3%
3331566 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 53.0 4.41e-01 100.0% 54.8%
4128974 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.61 51.0 4.77e-01 100.0% 76.2%
4160542 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.61 46.0 4.74e-01 100.0% 91.4%
1030893 11.26.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Viral chemokine binding protein m3 › Viral chemokine binding protein m3 › M3 0.61 53.0 3.89e-01 100.0% 45.7%
3733410 2004.1.1.36 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Dynamin_N 0.59 52.0 3.17e-01 100.0% 15.8%
4931876 11.1.1.1432 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF26259 0.59 47.0 4.12e-01 98.4% 57.9%
4027310 73.1.1.0 ↗ beta sandwiches › SMAD/FHA domain › SMAD/FHA domain › SMAD/FHA domain 0.58 52.0 4.07e-01 98.4% 96.9%
3188436 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.58 49.0 3.76e-01 100.0% 38.7%
3405662 11.1.1.822 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF229 0.58 41.0 3.77e-01 100.0% 54.4%
3479510 3662.1.1.0 ↗ a+b two layers › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related 0.58 41.0 3.42e-01 82.5% 41.7%
2106284 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.58 46.0 4.62e-01 100.0% 89.6%
3492718 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.58 51.0 4.41e-01 100.0% 63.0%
3611980 302.1.1.1 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.57 49.0 3.89e-01 100.0% 45.7%
3582580 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.57 51.0 4.15e-01 98.4% 59.1%
3488222 304.120.1.9 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › MBTP1_N 0.57 49.0 4.27e-01 95.2% 87.4%
2741079 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.57 45.0 4.43e-01 100.0% 84.5%
3736517 224.1.1.1 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Cofilin_ADF 0.57 42.0 3.28e-01 100.0% 33.1%
3206295 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.57 48.0 3.31e-01 100.0% 54.3%
3702482 2492.1.1.34 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › LmjF365940-deam 0.57 47.0 3.54e-01 100.0% 36.7%
3571257 5089.1.1.3 ↗ beta complex topology › Membrane attack complex/perforin (MACPF) and cholesterol-dependent cytolysin (CDC) domains › Membrane attack complex/perforin (MACPF) and cholesterol-dependent cytolysin (CDC) domains › Membrane attack complex/perforin (MACPF) and cholesterol-dependent cytolysin (CDC) domains › Gasdermin 0.56 47.0 3.20e-01 95.2% 51.8%
3875755 11.1.1.828 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Fn3_ROS1 0.56 42.0 3.50e-01 100.0% 45.2%
3326913 12.3.1.2 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Cu_amine_oxid 0.56 41.0 2.78e-01 100.0% 20.5%
3585284 10.40.1.1 ↗ beta sandwiches › jelly-roll › PHR domain › PHR domain › PHR 0.55 49.0 3.52e-01 100.0% 33.2%
3859513 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 47.0 3.98e-01 100.0% 56.4%
3248448 1116.1.1.0 ↗ a+b two layers › Polycystin-mucolipin domain › Polycystin-mucolipin domain › Polycystin-mucolipin domain 0.55 47.0 3.38e-01 100.0% 42.0%
3691753 11.1.1.9 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_N 0.55 48.0 3.49e-01 100.0% 74.4%
3602915 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 40.0 3.54e-01 100.0% 52.6%
4026605 284.1.1.0 ↗ a+b two layers › FKBP-like › FKBP-like › FKBP-like 0.54 46.0 4.05e-01 100.0% 76.0%
4109626 1119.1.1.1 ↗ a+b complex topology › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › BioW 0.54 45.0 3.08e-01 100.0% 24.7%
3733240 11.1.1.41 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_C 0.53 45.0 3.26e-01 100.0% 75.1%
3754279 11.1.1.239 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › MG3 0.53 45.0 3.74e-01 98.4% 81.7%
3413442 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.53 47.0 4.28e-01 100.0% 91.8%
3230558 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.53 47.0 4.03e-01 100.0% 64.0%
3914909 11.1.1.239 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › MG3 0.53 45.0 3.74e-01 100.0% 55.0%
3586784 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.52 39.0 3.42e-01 100.0% 50.0%
4029036 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.51 42.0 3.85e-01 100.0% 72.2%
3268123 192.15.1.184 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › RA 0.51 43.0 3.74e-01 100.0% 69.5%
3254983 1.1.7.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.50 41.0 3.47e-01 100.0% 62.4%
4385505 11.1.1.9 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_N 0.50 40.0 3.26e-01 98.4% 83.4%