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SRR1747055_scaffold_2_prodigal-single.1__X__X__00060

Bact-Vir

SRR1747055_scaffold_2_prodigal-single.1__X__X__00060

Identity

Kingdom:
phage

Quality

82.8 mean pLDDT

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 21-94
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1gqeA03 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.81 68.0 6.51e-01 89.2% 78.3%
2ywqA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.81 55.0 5.15e-01 83.8% 59.1%
2rsmA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.77 63.0 5.39e-01 89.2% 56.5%
1asuA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.74 51.0 3.91e-01 79.7% 32.7%
1ah5A03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.69 54.0 5.14e-01 100.0% 70.9%
4htgA03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.69 48.0 4.73e-01 75.7% 68.4%
2rs7A01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.67 50.0 5.00e-01 81.1% 77.0%
3mmhA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.67 55.0 4.19e-01 89.2% 44.3%
6yiiA01 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.67 54.0 3.84e-01 90.5% 70.5%
3s6gA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.65 39.0 3.10e-01 81.1% 29.5%
2rloA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.65 41.0 3.43e-01 71.6% 36.7%
2w01B00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.64 48.0 3.61e-01 82.4% 74.1%
1tk7A01 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.63 31.0 4.04e-01 75.7% 91.9%
1okjB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.62 42.0 3.55e-01 100.0% 41.7%
4nwyA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.61 50.0 4.22e-01 90.5% 82.0%
5cz2C00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.60 51.0 4.04e-01 94.6% 92.1%
1h10A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.59 42.0 3.60e-01 90.5% 47.0%
8b4hA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.59 48.0 3.79e-01 91.9% 100.0%
3rm5B01 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.59 48.0 3.21e-01 89.2% 83.7%
1neiA00 3.30.160.220 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › YoaG 0.59 43.0 4.71e-01 79.7% 98.3%
3fehA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.58 47.0 3.97e-01 95.9% 52.4%
1z1bA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.58 36.0 4.05e-01 79.7% 82.5%
3razA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.57 42.0 3.48e-01 78.4% 85.9%
4uuwA03 3.90.950.20 Alpha Beta › Alpha-Beta Complex › Maf protein › CinA-like 0.57 43.0 3.47e-01 81.1% 87.1%
3a32A02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.57 41.0 3.38e-01 86.5% 40.4%
1atiB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.56 36.0 3.24e-01 74.3% 43.8%
4f9zA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 39.0 3.53e-01 74.3% 80.6%
2dfkC02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 41.0 3.33e-01 85.1% 41.8%
5d3xB00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.54 41.0 3.36e-01 85.1% 43.3%
3h1tA01 3.90.1570.30 Alpha Beta › Alpha-Beta Complex › tt1808, chain A › 0.54 42.0 3.52e-01 87.8% 80.3%
6xzqA01 3.40.91.90 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › Influenza RNA-dependent RNA polymerase subunit PA, endonuclease domain 0.52 37.0 2.87e-01 75.7% 34.6%
7o85C01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 31.0 3.16e-01 100.0% 58.4%
8be0A01 3.40.91.90 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › Influenza RNA-dependent RNA polymerase subunit PA, endonuclease domain 0.51 39.0 2.91e-01 82.4% 33.0%
1bu8A02 2.60.60.20 Mainly Beta › Sandwich › Lipoxygenase-1 › PLAT/LH2 domain 0.51 35.0 3.12e-01 71.6% 98.1%
2nmlA00 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.51 35.0 3.26e-01 74.3% 62.0%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4965851 4100.1.1.9 a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › DUF7387 0.85 50.0 5.70e-01 86.5% 80.0%
5015133 4100.1.1.9 a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › DUF7387 0.83 59.0 6.46e-01 100.0% 90.0%
3635007 330.3.1.1 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.81 66.0 5.41e-01 86.5% 50.4%
5020788 4100.1.1.0 a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.81 55.0 5.86e-01 100.0% 80.0%
5047657 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.81 48.0 5.45e-01 82.4% 80.0%
3219930 330.3.1.1 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.81 67.0 5.45e-01 87.8% 51.2%
3753952 330.3.1.1 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.81 66.0 5.45e-01 87.8% 51.2%
3966973 330.3.1.1 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.81 68.0 6.11e-01 89.2% 68.4%
4015067 330.3.1.0 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like 0.80 65.0 5.42e-01 86.5% 52.5%
3785552 330.3.1.1 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.80 66.0 5.21e-01 86.5% 45.7%
3591242 330.3.1.1 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.80 66.0 5.40e-01 87.8% 51.2%
4665955 330.3.1.0 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like 0.80 67.0 6.35e-01 89.2% 76.5%
3598137 330.3.1.0 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like 0.80 66.0 6.28e-01 89.2% 76.5%
3178493 330.3.1.1 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.80 67.0 5.94e-01 89.2% 65.0%
3661468 330.3.1.1 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.79 66.0 6.01e-01 89.2% 68.4%
3708684 330.3.1.1 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.79 66.0 6.25e-01 89.2% 76.5%
3605915 330.3.1.1 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.78 65.0 6.18e-01 89.2% 76.5%
3820953 330.3.1.1 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.77 63.0 5.83e-01 89.2% 71.1%
3451633 330.1.1.3 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Dicer_dimer 0.76 51.0 5.79e-01 97.3% 94.5%
4944397 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.73 41.0 4.83e-01 77.0% 82.0%
4975692 330.4.1.1 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.71 55.0 5.18e-01 100.0% 67.8%
4048220 330.4.1.1 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.70 54.0 5.29e-01 100.0% 76.2%
4135153 330.4.1.1 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.69 49.0 4.93e-01 79.7% 73.3%
4609498 330.4.1.1 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.67 51.0 4.97e-01 100.0% 75.0%
4967370 330.4.1.1 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.66 50.0 4.67e-01 100.0% 66.7%
5061231 4100.1.1.0 a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.65 44.0 4.77e-01 100.0% 86.7%
4142693 7502.1.1.1 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.64 36.0 3.36e-01 70.3% 43.3%
4327535 7502.1.1.1 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.64 36.0 3.56e-01 75.7% 50.0%
4965501 330.4.1.1 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.62 47.0 4.47e-01 100.0% 67.8%
3946510 803.1.1.0 a+b duplicates or obligate multimers › Hypothetical protein YoaG › Hypothetical protein YoaG › Hypothetical protein YoaG 0.61 37.0 4.47e-01 71.6% 100.0%
4434012 330.4.1.1 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.61 48.0 4.61e-01 100.0% 74.1%
4991612 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.60 42.0 4.34e-01 86.5% 77.1%
3195256 327.16.1.0 a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system 0.60 40.0 3.89e-01 70.3% 98.8%
3931122 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.59 37.0 3.43e-01 83.8% 50.5%
3739035 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.59 36.0 3.88e-01 70.3% 75.0%
5022956 2002.1.1.0 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels 0.57 46.0 3.33e-01 89.2% 76.3%
4823230 220.1.1.66 beta barrels › PH domain-like › PH domain-like › PH domain-like › SOS1_NGEF_PH 0.57 46.0 4.46e-01 87.8% 79.0%
3937740 220.1.1.11 beta barrels › PH domain-like › PH domain-like › PH domain-like › Rpn13_ADRM1_Pru 0.57 38.0 3.19e-01 70.3% 47.7%
5080826 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.57 46.0 3.77e-01 91.9% 76.6%
5073431 1075.1.1.0 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain 0.56 47.0 2.83e-01 91.9% 33.7%
3351841 220.1.1.78 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_2 0.56 43.0 3.55e-01 85.1% 46.5%
5008420 7014.1.1.2 alpha bundles › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › TauE 0.56 45.0 3.45e-01 86.5% 67.5%
5079725 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.56 40.0 4.37e-01 98.6% 96.7%
3989984 2484.1.1.66 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_3 0.55 47.0 4.08e-01 100.0% 62.4%
3899209 5001.1.1.1 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.55 44.0 3.24e-01 86.5% 60.0%
3439202 220.1.1.30 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_BEACH 0.55 42.0 4.04e-01 97.3% 71.8%
4987009 3837.1.1.1 alpha bundles › Uncharacterized conserved protein Dip1984 › Uncharacterized conserved protein Dip1984 › Uncharacterized conserved protein Dip1984 › DUF6847 0.55 39.0 2.99e-01 85.1% 36.0%
3744042 216.1.1.27 a+b two layers › UBC-like › UBC-like › UBC-like › HGTP_anticodon2 0.54 43.0 3.50e-01 87.8% 73.8%
4956219 7502.1.1.1 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.54 42.0 3.59e-01 85.1% 90.8%
3987389 2004.1.1.5 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.53 46.0 2.78e-01 94.6% 52.5%
3248039 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.53 36.0 3.29e-01 71.6% 54.0%
4945025 2484.4.1.0 mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like 0.53 36.0 3.19e-01 70.3% 55.5%
3239964 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.52 45.0 2.97e-01 95.9% 53.2%
3174481 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.51 39.0 3.08e-01 82.4% 38.7%
3916165 633.23.1.22 alpha bundles › Bromodomain-like › Claudin › Claudin › MARVEL 0.51 46.0 3.47e-01 100.0% 89.1%
4027266 3291.1.1.0 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.51 42.0 3.34e-01 89.2% 72.2%
4531826 2003.1.3.8 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › Mqo 0.51 38.0 2.65e-01 85.1% 39.5%
3649913 5050.1.1.58 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › NFD4_C 0.50 38.0 2.94e-01 98.6% 35.9%