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SRR1747052_scaffold_7_prodigal-single.1__X__X__00153

Bact-Vir

SRR1747052_scaffold_7_prodigal-single.1__X__X__00153

Identity

Kingdom:
phage

Quality

83.4 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 medium residues 11-85
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1dqeA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.70 54.0 4.43e-01 94.7% 45.3%
5l3wA01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.70 55.0 5.36e-01 98.7% 76.2%
3ihmA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.64 52.0 3.84e-01 92.0% 91.2%
3h3aA04 1.10.246.80 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.64 42.0 4.80e-01 92.0% 100.0%
3nctA00 3.40.50.11880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Plasmid SOS inhibition protein 0.63 55.0 4.53e-01 97.3% 73.0%
4tveA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.63 47.0 4.02e-01 78.7% 83.8%
4oifB01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.58 44.0 2.76e-01 80.0% 33.6%
3b9qA01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.57 43.0 4.13e-01 100.0% 70.8%
2jx8A00 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.57 29.0 3.46e-01 85.3% 74.5%
3gnjA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 41.0 3.62e-01 78.7% 81.1%
4hasA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.56 42.0 3.83e-01 82.7% 96.2%
1ospO02 3.90.930.1 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.55 42.0 3.44e-01 84.0% 91.1%
3eagA02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.54 44.0 3.23e-01 100.0% 31.2%
4epkB00 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.52 45.0 2.99e-01 98.7% 64.2%
4mtlA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 37.0 2.81e-01 82.7% 51.0%
ECOD (22)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3961618 181.1.1.1 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N 0.66 49.0 5.30e-01 97.3% 100.0%
4988048 3788.1.1.0 ↗ alpha bundles › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) 0.63 44.0 4.77e-01 72.0% 96.7%
5035414 181.1.1.1 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N 0.63 50.0 4.75e-01 100.0% 72.2%
4994898 181.1.1.1 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N 0.62 48.0 4.65e-01 100.0% 76.5%
3175342 633.23.1.37 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › PF29133 0.60 49.0 3.39e-01 90.7% 37.4%
3727322 2485.1.1.1 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin 0.60 47.0 3.41e-01 85.3% 76.7%
4979039 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.60 43.0 3.12e-01 76.0% 92.8%
4411256 2004.1.1.80 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Cytidylate_kin 0.57 51.0 3.62e-01 100.0% 94.4%
3945055 2484.2.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Methylated DNA-protein cysteine methyltransferase domain › Methylated DNA-protein cysteine methyltransferase domain › Methyltransf_1N 0.56 46.0 4.44e-01 89.3% 100.0%
3664203 2003.1.5.31 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › GRAS 0.56 46.0 3.00e-01 96.0% 81.3%
4270267 2004.1.1.159 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.55 47.0 3.47e-01 97.3% 35.8%
5035289 2004.1.1.159 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.54 44.0 3.07e-01 97.3% 24.9%
3860702 2004.5.1.13 ↗ a/b three-layered sandwiches › P-loop domains-like › Differentially expressed in normal cells and neoplasia (DENN) domain › Differentially expressed in normal cells and neoplasia (DENN) domain › SPA, Avl9 0.54 46.0 3.44e-01 100.0% 74.6%
5002624 4100.1.1.3 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › HicB_lk_antitox 0.53 36.0 3.74e-01 70.7% 78.6%
4594328 181.1.1.2 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › FlhF_N 0.53 45.0 4.59e-01 100.0% 100.0%
4232295 2004.1.1.159 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.53 44.0 3.26e-01 96.0% 35.0%
4458319 2004.1.1.159 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.53 42.0 3.06e-01 88.0% 83.2%
3606110 7516.1.1.0 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases 0.52 42.0 2.85e-01 92.0% 36.1%
3577264 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.52 41.0 3.29e-01 86.7% 45.3%
4961481 4325.1.1.0 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like 0.51 38.0 3.92e-01 78.7% 95.7%
4026701 180.1.1.1 ↗ alpha bundles › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › PAP2 0.51 44.0 3.28e-01 98.7% 80.0%
5078256 298.1.1.24 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › GFO_IDH_MocA_C3 0.50 46.0 3.36e-01 100.0% 95.4%
D2 medium residues 86-155
PDB
Domain cluster: representative
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1s1dA00 2.120.10.100 Mainly Beta › 6 Propeller › Neuraminidase › Apyrase 0.72 55.0 3.52e-01 81.4% 28.7%
3bghB01 3.30.160.180 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Putative neuraminyllactose-binding hemagglutinin homolog like domain 0.72 63.0 4.71e-01 97.1% 88.3%
1j8bA00 3.30.1310.10 Alpha Beta › 2-Layer Sandwich › Ybab; Chain: A; › Nucleoid-associated protein YbaB-like domain 0.72 49.0 4.47e-01 71.4% 56.5%
5vyqA01 3.40.50.170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Formyl transferase, N-terminal domain 0.69 56.0 4.22e-01 90.0% 86.4%
5uaiA01 3.40.50.170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Formyl transferase, N-terminal domain 0.69 57.0 4.09e-01 91.4% 86.9%
2j3wC00 3.30.450.70 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.64 54.0 4.37e-01 97.1% 48.9%
3pvlA04 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.63 44.0 3.95e-01 72.9% 76.8%
4a2bA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.62 46.0 3.63e-01 77.1% 46.4%
3ecrB03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.62 50.0 4.45e-01 90.0% 92.2%
2czrA02 3.90.79.30 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › TBP-interacting protein, C-terminal domain 0.61 42.0 3.45e-01 71.4% 68.3%
4pqgA03 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.61 50.0 3.83e-01 92.9% 84.5%
7x4oB01 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.61 47.0 4.11e-01 85.7% 91.0%
3ottB02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.60 47.0 3.08e-01 87.1% 24.7%
2aj6A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.59 36.0 2.98e-01 84.3% 35.0%
1z6nA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.59 47.0 3.64e-01 90.0% 63.9%
1wzoA01 2.30.30.370 Mainly Beta › Roll › SH3 type barrels. › FAH 0.59 33.0 3.79e-01 77.1% 90.0%
2mnjB00 2.60.40.4160 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 37.0 3.45e-01 78.6% 50.0%
1npeA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.58 43.0 2.96e-01 81.4% 29.7%
5z2xA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.58 48.0 3.09e-01 92.9% 52.0%
2bmxB01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.57 44.0 3.38e-01 85.7% 76.7%
1ijqA01 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.56 43.0 2.98e-01 85.7% 29.1%
3d89A00 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.55 46.0 3.70e-01 91.4% 77.9%
2h1qA01 3.30.390.100 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.54 40.0 3.44e-01 84.3% 63.3%
1xvwA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.53 40.0 3.21e-01 84.3% 90.5%
2obdA02 3.15.10.10 Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 1 › Bactericidal permeability-increasing protein; domain 1 0.53 48.0 3.47e-01 100.0% 57.7%
3zg9A00 6.20.370.110 Special › Other non-globular › Rhinovirus 14, subunit 4 › 0.52 22.0 2.76e-01 84.3% 61.0%
3mtsA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.52 36.0 3.87e-01 74.3% 96.8%
2m3xC02 2.40.10.360 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.52 41.0 4.13e-01 88.6% 92.8%
ECOD (32)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3716610 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.72 52.0 4.63e-01 77.1% 88.0%
4644171 7571.1.1.1 ↗ a/b three-layered sandwiches › Formyltransferase › Formyltransferase › Formyltransferase › Formyl_trans_N 0.71 59.0 4.25e-01 91.4% 88.5%
4036688 7520.1.1.1 ↗ a/b three-layered sandwiches › CinA-like › CinA-like › CinA-like › CinA 0.70 60.0 4.59e-01 97.1% 86.7%
5004322 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.67 49.0 4.55e-01 78.6% 83.3%
3698558 331.9.1.0 ↗ a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain 0.67 46.0 3.63e-01 72.9% 93.2%
3246494 292.2.1.1 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › POLO_box 0.66 52.0 3.55e-01 84.3% 94.7%
5012768 5.1.10.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 12-bladed › DUF6849 0.66 47.0 4.85e-01 74.3% 98.5%
3570691 220.1.1.208 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PF28207 0.63 46.0 3.98e-01 77.1% 69.1%
5065735 2485.1.1.46 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin_9 0.62 48.0 3.79e-01 84.3% 98.6%
3777260 109.4.1.148 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › EST1_DNA_bind,EST1 0.60 50.0 2.88e-01 88.6% 35.7%
3470449 4357.1.1.0 ↗ beta barrels › WWE domain › WWE domain › WWE domain 0.60 39.0 3.79e-01 77.1% 58.7%
3758265 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.59 40.0 3.49e-01 77.1% 48.0%
4332836 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.59 49.0 3.08e-01 95.7% 36.9%
3937632 859.1.1.0 ↗ a+b two layers › The spindle assembly checkpoint protein mad2 › The spindle assembly checkpoint protein mad2 › The spindle assembly checkpoint protein mad2 0.58 48.0 3.64e-01 91.4% 80.6%
3243117 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.58 41.0 3.59e-01 77.1% 51.0%
152904 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.57 38.0 3.61e-01 70.0% 58.6%
3504590 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.57 38.0 3.74e-01 95.7% 64.0%
3791852 188.1.1.1 ↗ alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Hormone_recep 0.57 41.0 3.23e-01 90.0% 34.4%
3991693 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.57 40.0 4.07e-01 74.3% 88.6%
4946106 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.56 44.0 2.91e-01 87.1% 64.0%
5062107 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.56 42.0 2.81e-01 82.9% 25.0%
3793856 5.1.4.421 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_IFT140_1st, Beta-prop_IFT140_2nd 0.55 45.0 2.60e-01 94.3% 16.9%
4011287 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.55 40.0 4.04e-01 80.0% 80.0%
3621737 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.55 49.0 3.51e-01 100.0% 44.9%
3629097 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.54 40.0 3.53e-01 77.1% 56.0%
3386602 2484.2.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Methylated DNA-protein cysteine methyltransferase domain › Methylated DNA-protein cysteine methyltransferase domain › Methyltransf_1N 0.54 39.0 4.08e-01 82.9% 81.5%
3703468 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.53 48.0 3.16e-01 100.0% 43.2%
3227532 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.53 42.0 3.28e-01 94.3% 82.8%
3947929 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.52 42.0 3.24e-01 97.1% 93.7%
4204596 3744.1.1.1 ↗ a+b two layers › Photosystem II antenna protein PsbB insertion domain › Photosystem II antenna protein PsbB insertion domain › Photosystem II antenna protein PsbB insertion domain › PSII 0.52 37.0 3.13e-01 75.7% 45.8%
4949552 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.51 40.0 4.08e-01 84.3% 88.6%
4935893 2002.1.1.120 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.51 43.0 2.76e-01 100.0% 72.5%