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S2_005_003_R2_scaffold_7_prodigal-single.1__X__X__00239

Bact-Vir

S2_005_003_R2_scaffold_7_prodigal-single.1__X__X__00239

Identity

Kingdom:
phage

Quality

77.7 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 41-77
PDB
Domain cluster: representative
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ga8A00 3.10.20.860 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.78 60.0 4.97e-01 86.5% 47.8%
3h51A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.76 57.0 3.84e-01 83.8% 73.9%
5w8mA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.71 51.0 3.27e-01 81.1% 66.3%
3gw6D02 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 0.68 46.0 3.07e-01 73.0% 16.8%
7sxqA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.68 49.0 3.02e-01 78.4% 11.7%
3pijA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.65 49.0 2.83e-01 86.5% 66.8%
3d2lA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.64 46.0 3.96e-01 75.7% 84.1%
2y3aA01 3.10.20.770 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.64 47.0 2.83e-01 83.8% 29.3%
3tw8A01 3.30.450.200 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Longin module 0.64 44.0 3.08e-01 73.0% 23.2%
4gn2A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.63 44.0 2.72e-01 73.0% 67.1%
2byvE05 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.63 46.0 3.77e-01 83.8% 88.6%
1se8A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.60 44.0 3.22e-01 83.8% 82.0%
2mp4A00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.59 42.0 2.96e-01 91.9% 46.1%
1dfaA01 2.170.16.10 Mainly Beta › Beta Complex › Endonuclease - Pi-scei; Chain A, domain 1 › Hedgehog/Intein (Hint) domain 0.58 43.0 2.90e-01 100.0% 73.8%
5ek8A01 2.60.40.3330 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 43.0 3.02e-01 78.4% 42.9%
1o75A02 2.30.30.470 Mainly Beta › Roll › SH3 type barrels. › Penicillin-binding protein Tp47, domain B 0.57 39.0 2.88e-01 75.7% 78.6%
5ib9A01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.57 39.0 2.45e-01 83.8% 60.4%
7r5mA01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.57 44.0 2.83e-01 97.3% 78.0%
3n77A00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.57 43.0 3.07e-01 86.5% 51.1%
6rupA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 41.0 3.04e-01 83.8% 94.6%
1novA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.56 43.0 2.63e-01 94.6% 47.2%
2k5qA00 2.40.50.480 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Protein of unknown function DUF1093 0.56 38.0 2.96e-01 75.7% 39.0%
5xc5A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.56 40.0 2.70e-01 73.0% 18.6%
3nqzA02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 38.0 3.03e-01 100.0% 29.8%
1fs7A01 1.10.1130.10 Mainly Alpha › Orthogonal Bundle › Flavocytochrome C3; Chain A, domain 2 › Flavocytochrome C3; Chain A 0.55 41.0 2.46e-01 81.1% 20.6%
3pgbA01 2.70.98.20 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Copper amine oxidase, catalytic domain 0.55 41.0 2.34e-01 91.9% 71.5%
1dpgA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.54 39.0 2.43e-01 89.2% 72.8%
3anzC00 2.70.240.10 Mainly Beta › Distorted Sandwich › Leukocidin-like › Leukocidin/porin MspA 0.54 38.0 2.37e-01 81.1% 21.8%
1aroP05 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.54 37.0 2.41e-01 75.7% 28.7%
3w1hA01 3.90.1150.110 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › 0.54 39.0 2.62e-01 81.1% 30.7%
3vpyA00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.54 38.0 2.73e-01 86.5% 31.7%
4mpoB00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.54 37.0 2.64e-01 78.4% 45.9%
4qszA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.53 42.0 2.59e-01 100.0% 40.8%
1p1hB01 3.30.2360.10 Alpha Beta › 2-Layer Sandwich › Glyceraldehyde-3-phosphate dehydrogenase-like fold › Glyceraldehyde-3-phosphate dehydrogenase-like domain 0.53 38.0 2.53e-01 83.8% 60.8%
5ejlA02 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.52 40.0 2.95e-01 86.5% 94.4%
2d73A01 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.52 40.0 2.45e-01 91.9% 87.0%
3fi7A02 4.10.80.30 Few Secondary Structures › Irregular › Rhinovirus 14, subunit 4 › DNA polymerase; domain 6 0.52 35.0 3.59e-01 70.3% 100.0%
3rd4B00 2.40.50.660 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 39.0 3.23e-01 94.6% 87.8%
3w1eA03 2.40.10.410 Mainly Beta › Beta Barrel › Thrombin, subunit H › FlgT, C-terminal domain 0.51 36.0 2.97e-01 83.8% 75.3%
1f8vC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.51 38.0 2.39e-01 100.0% 47.3%
ECOD (54)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3249352 4.23.1.2 ↗ beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.74 60.0 4.23e-01 97.3% 27.7%
3639466 4.23.1.2 ↗ beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.72 59.0 4.05e-01 97.3% 24.8%
3375428 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.71 51.0 3.03e-01 70.3% 22.0%
3947849 3609.1.1.4 ↗ alpha arrays › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › ArdcN 0.71 52.0 3.90e-01 78.4% 48.3%
3815772 109.4.1.1580 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT, HAT_Syf1_CNRKL1_C, HAT_Syf1_CNRKL1_N, HAT_PRP39_N, HAT_PRP39_C 0.70 54.0 2.93e-01 83.8% 5.8%
3238872 11.1.1.9 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_N 0.70 48.0 3.04e-01 70.3% 14.1%
3273636 328.1.1.0 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like 0.69 50.0 4.15e-01 73.0% 50.8%
4932882 4.23.1.2 ↗ beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.68 56.0 3.91e-01 94.6% 48.1%
3597361 4.23.1.0 ↗ beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like 0.67 51.0 3.67e-01 94.6% 30.0%
3175102 2008.1.1.79 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Pet127 0.66 45.0 2.59e-01 70.3% 7.0%
4669352 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.66 49.0 3.57e-01 81.1% 79.1%
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 0.66 49.0 4.32e-01 86.5% 65.0%
3603683 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.66 48.0 3.19e-01 70.3% 17.9%
3649881 67.1.1.1 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › DnaJ_C 0.65 47.0 3.81e-01 83.8% 70.6%
3739811 67.1.1.1 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › DnaJ_C 0.65 48.0 3.82e-01 86.5% 81.8%
3894181 101.1.2.115 ↗ alpha arrays › HTH › HTH › winged helix domain › CDC27 0.65 47.0 3.07e-01 78.4% 16.6%
3358123 109.3.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank 0.65 52.0 3.82e-01 97.3% 48.0%
3892329 67.1.1.1 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › DnaJ_C 0.65 46.0 3.66e-01 83.8% 66.7%
3227523 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.64 47.0 3.36e-01 83.8% 40.0%
3633076 1.1.1.30 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease › PF30863 0.64 44.0 3.26e-01 70.3% 24.8%
3422000 11.1.5.29 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › Sec23_BS 0.64 45.0 3.35e-01 78.4% 65.7%
None — 0.64 47.0 2.69e-01 83.8% 82.7%
4976856 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.63 45.0 2.71e-01 81.1% 46.6%
5041736 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.63 46.0 3.88e-01 89.2% 84.0%
4007581 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.63 46.0 4.34e-01 89.2% 66.0%
3932950 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.62 46.0 2.67e-01 83.8% 14.4%
4487061 328.8.1.1 ↗ a+b two layers › IF3-like › Schlafen 8 › Schlafen 8 › SLFN_AlbA_2 0.61 43.0 2.96e-01 83.8% 61.2%
3244177 11.1.1.934 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_N, Arrestin_C 0.61 44.0 2.61e-01 83.8% 56.8%
4233683 171.1.1.1 ↗ alpha arrays › RNase III catalytic domain-like › RNase III catalytic domain-like › RNase III catalytic domain-like › Ribonuclease_3 0.61 44.0 2.82e-01 83.8% 55.0%
3832498 4967.1.1.6 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › Intron_maturas2 0.60 44.0 2.83e-01 86.5% 79.1%
3926817 219.1.1.25 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › LRAT 0.60 49.0 3.19e-01 83.8% 20.1%
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 0.60 51.0 2.86e-01 100.0% 28.1%
3737341 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.59 46.0 3.29e-01 94.6% 69.2%
3563069 1086.1.1.5 ↗ beta meanders › C-terminal beta-hairpin in astrotactin-2 › C-terminal beta-hairpin in astrotactin-2 › C-terminal beta-hairpin in astrotactin-2 › EMI 0.59 45.0 4.25e-01 81.1% 88.9%
2833984 11.13.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Leukocidin-like › Leukocidin-like › Leukocidin 0.58 40.0 2.45e-01 75.7% 78.8%
4891081 224.1.1.2 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Gelsolin 0.57 41.0 2.76e-01 78.4% 42.9%
4973134 67.1.1.1 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › DnaJ_C 0.57 39.0 3.09e-01 97.3% 29.5%
None — 0.57 40.0 2.45e-01 81.1% 22.2%
4029824 2484.1.1.20 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_A_exo1 0.57 41.0 2.56e-01 89.2% 11.8%
3675745 328.1.1.1 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like › Alba 0.57 40.0 3.32e-01 73.0% 43.8%
3174953 69.1.1.2 ↗ beta complex topology › Hedgehog/intein › Hedgehog/intein › Hint › Hom_end_hint 0.56 39.0 2.52e-01 97.3% 13.1%
4241225 304.102.1.6 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › TruB_N,TruB_C_2 0.56 41.0 2.46e-01 75.7% 9.1%
4923851 224.1.1.2 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Gelsolin 0.56 39.0 2.66e-01 78.4% 42.9%
3902637 385.1.1.5 ↗ few secondary structure elements › Cystine-knot cytokines › Cystine-knot cytokines › Cystine-knot cytokines › PDGF 0.55 38.0 3.11e-01 73.0% 31.8%
1758564 69.1.1.2 ↗ beta complex topology › Hedgehog/intein › Hedgehog/intein › Hint › Hom_end_hint 0.55 39.0 2.72e-01 89.2% 22.4%
1943 11.13.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Leukocidin-like › Leukocidin-like › Leukocidin 0.54 39.0 2.39e-01 81.1% 21.8%
5036216 304.51.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › RAMPs 0.54 42.0 2.74e-01 100.0% 91.4%
4941505 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.54 42.0 3.62e-01 81.1% 63.1%
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 0.53 38.0 2.44e-01 75.7% 11.7%
3182396 67.1.1.1 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › DnaJ_C 0.52 36.0 2.93e-01 83.8% 63.2%
3852918 4290.1.1.8 ↗ alpha duplicates or obligate multimers › HP0242-like › HP0242-like › HP0242-like › Dynactin_p62 0.51 38.0 3.18e-01 75.7% 40.6%
3777035 11.1.1.504 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Dynactin_p62 0.51 37.0 3.14e-01 75.7% 40.6%
3943661 304.5.1.13 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF3574 0.51 37.0 3.02e-01 97.3% 100.0%
5074420 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) 0.51 36.0 2.59e-01 81.1% 63.0%