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PHAGE-A6--js4906-27-3_S30_scaffold_5_curated_closed_complete_prodigal-single.1__X__X__00382

Bact-Vir

PHAGE-A6--js4906-27-3_S30_scaffold_5_curated_closed_complete_prodigal-single.1__X__X__00382

Identity

Kingdom:
phage

Quality

77.9 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 1-32
PDB
Domain cluster: representative
CATH (49)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7cymA03 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.84 63.0 4.66e-01 87.5% 32.2%
1y12B00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.74 56.0 3.65e-01 90.6% 19.2%
8egxA04 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.69 49.0 3.57e-01 81.2% 25.7%
4jdeA01 2.60.40.3820 Mainly Beta › Sandwich › Immunoglobulin-like › 0.67 51.0 3.49e-01 96.9% 54.0%
3anzC00 2.70.240.10 Mainly Beta › Distorted Sandwich › Leukocidin-like › Leukocidin/porin MspA 0.67 50.0 2.95e-01 93.8% 17.0%
3j7aZ00 3.30.1230.20 Alpha Beta › 2-Layer Sandwich › Hypothetical Cytosolic Protein; Chain: A; › Ribosomal protein S21 0.66 53.0 4.29e-01 100.0% 45.8%
1u6zA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.65 48.0 3.44e-01 96.9% 32.5%
2xzmZ00 3.30.1230.20 Alpha Beta › 2-Layer Sandwich › Hypothetical Cytosolic Protein; Chain: A; › Ribosomal protein S21 0.64 50.0 3.79e-01 100.0% 33.0%
3pp9B00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.63 47.0 3.02e-01 90.6% 34.5%
3q9oA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.61 44.0 2.84e-01 96.9% 14.4%
5w8mA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.60 45.0 2.83e-01 96.9% 13.8%
3d2lA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.59 46.0 3.85e-01 96.9% 47.6%
4qmaA02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.59 43.0 3.01e-01 93.8% 21.0%
3iayA03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.58 43.0 2.78e-01 100.0% 38.5%
5ek8A01 2.60.40.3330 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 43.0 3.13e-01 100.0% 46.8%
6nvxB02 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.57 45.0 3.61e-01 100.0% 58.4%
7uclA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.57 41.0 2.95e-01 75.0% 23.5%
3l50A00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.57 40.0 2.82e-01 100.0% 20.6%
6rupA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 43.0 3.19e-01 96.9% 68.5%
4yfbC02 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.56 43.0 3.50e-01 100.0% 66.7%
1s3rA04 2.60.40.1430 Mainly Beta › Sandwich › Immunoglobulin-like › Perfringolysin, domain 4 0.56 42.0 3.14e-01 100.0% 46.8%
3l9bA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.56 40.0 2.96e-01 100.0% 26.2%
3pgbA01 2.70.98.20 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Copper amine oxidase, catalytic domain 0.56 39.0 2.24e-01 90.6% 55.8%
5azpA02 2.20.200.10 Mainly Beta › Single Sheet › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.55 42.0 3.38e-01 100.0% 51.9%
3nqzA02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 39.0 3.10e-01 81.2% 32.1%
8in8C01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.55 42.0 2.58e-01 96.9% 79.4%
5jtwA06 6.20.50.160 Special › Other non-globular › N-terminal domain of TfIIb › 0.55 38.0 3.28e-01 81.2% 45.2%
4wksC02 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.54 41.0 3.31e-01 93.8% 41.3%
1f8vC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.54 37.0 2.25e-01 84.4% 15.4%
2ychA02 3.30.1490.300 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.53 38.0 3.32e-01 81.2% 48.3%
4gs3A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 42.0 3.15e-01 96.9% 33.3%
6qdws00 3.90.470.10 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › Ribosomal protein L22/L17 0.53 39.0 2.82e-01 87.5% 100.0%
5odnC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 38.0 2.94e-01 96.9% 28.4%
1n9eA01 2.70.98.20 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Copper amine oxidase, catalytic domain 0.53 41.0 2.33e-01 100.0% 18.9%
2ivwA01 2.30.30.830 Mainly Beta › Roll › SH3 type barrels. › 0.53 40.0 3.10e-01 96.9% 36.3%
8dqwG01 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.53 40.0 2.63e-01 100.0% 21.1%
1xttB00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.52 35.0 2.42e-01 100.0% 82.2%
3wa7A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.52 39.0 2.23e-01 100.0% 7.1%
7o4xA01 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 42.0 3.05e-01 96.9% 56.6%
4ubtD00 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.52 37.0 2.17e-01 81.2% 6.4%
8enbA01 2.10.90.10 Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines 0.52 40.0 3.19e-01 100.0% 96.4%
3cjlA00 3.10.20.850 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Protein of unknown function DUF3861 0.52 36.0 2.92e-01 84.4% 30.7%
5iu1B00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.52 40.0 2.88e-01 96.9% 26.8%
5ib9A01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.52 39.0 2.35e-01 90.6% 12.3%
4zg5A00 3.40.1210.10 Alpha Beta › 3-Layer(aba) Sandwich › Stationary-phase Survival Protein Sure Homolog; Chain: A, › Survival protein SurE-like phosphatase/nucleotidase 0.51 35.0 2.32e-01 100.0% 47.4%
3rd4B00 2.40.50.660 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 35.0 2.87e-01 93.8% 29.3%
3hvnA02 3.30.1040.20 Alpha Beta › 2-Layer Sandwich › Carboxypeptidase Inhibitor; Chain A › 0.51 35.0 3.32e-01 100.0% 49.1%
1pfoA02 3.30.1040.20 Alpha Beta › 2-Layer Sandwich › Carboxypeptidase Inhibitor; Chain A › 0.50 34.0 3.20e-01 100.0% 49.1%
1fm2B03 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.50 36.0 3.19e-01 100.0% 65.2%
ECOD (56)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4176389 11.1.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin 0.81 64.0 4.15e-01 100.0% 20.0%
3377970 3167.1.1.1 ↗ a+b two layers › 40S ribosomal protein rpS21 (S21e) › 40S ribosomal protein rpS21 (S21e) › 40S ribosomal protein rpS21 (S21e) › Ribosomal_S21e 0.75 60.0 4.69e-01 100.0% 40.5%
4621143 11.1.1.248 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › bMG6 0.72 55.0 3.86e-01 100.0% 60.8%
5030694 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.70 49.0 3.30e-01 84.4% 19.2%
4833007 3167.1.1.1 ↗ a+b two layers › 40S ribosomal protein rpS21 (S21e) › 40S ribosomal protein rpS21 (S21e) › 40S ribosomal protein rpS21 (S21e) › Ribosomal_S21e 0.68 53.0 4.09e-01 100.0% 36.4%
3599253 3167.1.1.0 ↗ a+b two layers › 40S ribosomal protein rpS21 (S21e) › 40S ribosomal protein rpS21 (S21e) › 40S ribosomal protein rpS21 (S21e) 0.68 54.0 4.25e-01 100.0% 40.0%
1943 11.13.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Leukocidin-like › Leukocidin-like › Leukocidin 0.67 50.0 2.95e-01 93.8% 17.1%
1569515 11.1.1.248 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › bMG6 0.66 51.0 3.93e-01 100.0% 83.5%
2831825 3167.1.1.1 ↗ a+b two layers › 40S ribosomal protein rpS21 (S21e) › 40S ribosomal protein rpS21 (S21e) › 40S ribosomal protein rpS21 (S21e) › Ribosomal_S21e 0.65 51.0 4.28e-01 100.0% 47.1%
1923015 3167.1.1.1 ↗ a+b two layers › 40S ribosomal protein rpS21 (S21e) › 40S ribosomal protein rpS21 (S21e) › 40S ribosomal protein rpS21 (S21e) › Ribosomal_S21e 0.64 50.0 3.81e-01 100.0% 33.0%
4996027 304.139.1.2 ↗ a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.63 46.0 2.84e-01 100.0% 11.5%
3998297 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.62 50.0 3.29e-01 100.0% 22.7%
3516513 109.2.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › alpha/alpha toroid › alpha/alpha toroid 0.62 44.0 2.38e-01 81.2% 17.6%
3604748 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.62 46.0 2.82e-01 96.9% 12.6%
3684953 2002.1.1.60 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › AP_endonuc_2 0.61 43.0 2.44e-01 81.2% 6.2%
4797758 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.61 44.0 4.46e-01 100.0% 80.0%
1893038 11.1.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin 0.61 45.0 3.97e-01 100.0% 51.7%
3932950 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.61 45.0 2.68e-01 100.0% 13.1%
3587268 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.60 44.0 3.08e-01 96.9% 22.5%
3294964 3256.1.1.0 ↗ a+b two layers › DUF2233 N-terminal domain › DUF2233 N-terminal domain › DUF2233 N-terminal domain 0.59 42.0 4.27e-01 81.2% 96.0%
4973231 304.48.1.20 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Thg1 0.59 44.0 2.75e-01 93.8% 92.9%
3284357 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.59 42.0 2.97e-01 84.4% 20.8%
3394803 11.1.1.9 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_N 0.59 43.0 2.82e-01 90.6% 57.7%
3956484 512.1.1.0 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) 0.59 43.0 3.05e-01 90.6% 40.8%
3215667 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.59 47.0 3.31e-01 100.0% 60.8%
4933294 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.58 41.0 2.99e-01 90.6% 68.8%
4137758 375.14.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) 0.58 46.0 4.15e-01 100.0% 62.0%
3211918 11.1.1.9 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_N 0.58 40.0 2.78e-01 100.0% 17.5%
3184150 2487.1.1.9 ↗ a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" › Cyclase 0.58 45.0 2.67e-01 100.0% 79.3%
4025866 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.58 40.0 2.34e-01 87.5% 7.5%
4452393 304.112.1.10 ↗ a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain › Med13_N 0.57 41.0 3.02e-01 96.9% 25.7%
3633076 1.1.1.30 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease › PF30863 0.57 42.0 3.11e-01 100.0% 26.7%
3257755 3529.1.1.6 ↗ beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Band_7 0.56 42.0 3.40e-01 100.0% 40.0%
3422000 11.1.5.29 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › Sec23_BS 0.56 42.0 3.07e-01 93.8% 33.3%
4028267 244.3.1.2 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › SufE/NifU › SufE/NifU › SufE 0.55 39.0 2.58e-01 87.5% 16.9%
4021130 221.4.1.0 ↗ a+b two layers › beta-Grasp › Nudix › Nudix 0.55 42.0 2.72e-01 100.0% 66.5%
2035523 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.55 42.0 3.09e-01 100.0% 63.4%
5010503 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 39.0 2.90e-01 87.5% 27.4%
3450430 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.55 37.0 2.50e-01 100.0% 13.7%
3926817 219.1.1.25 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › LRAT 0.55 42.0 2.76e-01 93.8% 39.1%
4230774 101.1.9.117 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_assoc 0.55 39.0 3.01e-01 100.0% 29.5%
4004108 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.54 39.0 2.39e-01 96.9% 10.8%
3477515 11.1.1.179 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 0.54 38.0 2.83e-01 87.5% 24.3%
3997559 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.54 38.0 2.44e-01 96.9% 11.2%
3213645 267.1.1.0 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain 0.53 41.0 2.52e-01 100.0% 46.4%
4944821 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.53 39.0 3.41e-01 100.0% 48.3%
3268156 223.2.1.4 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › DENN,uDENN 0.53 35.0 2.39e-01 100.0% 14.1%
3986530 330.1.1.33 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › SF0329 0.53 37.0 2.75e-01 90.6% 25.2%
4942060 3010.1.1.0 ↗ a/b three-layered sandwiches › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains 0.52 36.0 2.92e-01 100.0% 55.0%
3485197 2498.1.1.39 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › SprT-like 0.52 37.0 2.48e-01 100.0% 17.5%
3639274 261.1.1.1 ↗ a+b complex topology › Hect, E3 ligase catalytic domain › Hect, E3 ligase catalytic domain › Hect, E3 ligase catalytic domain › HECT 0.52 38.0 2.19e-01 100.0% 53.8%
4976856 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.52 36.0 2.22e-01 90.6% 11.0%
3501618 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.51 35.0 3.62e-01 81.2% 96.0%
3522563 389.1.1.0 ↗ few secondary structure elements › EGF-like › EGF-related › EGF/Laminin 0.51 40.0 3.86e-01 100.0% 95.0%
3534588 2004.1.1.30 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.50 35.0 2.25e-01 100.0% 11.6%
3280088 223.1.1.17 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › ScfRs 0.50 37.0 2.85e-01 96.9% 31.0%