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SRR1747021_scaffold_4_curated_closed_complete_prodigal-single.1__X__X__00178

Bact-Vir

SRR1747021_scaffold_4_curated_closed_complete_prodigal-single.1__X__X__00178

Identity

Kingdom:
phage

Quality

79.6 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 13-92_192-221
PDB
Domain cluster: representative
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2psoB02 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.70 42.0 3.51e-01 81.8% 36.5%
1jssA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.69 42.0 3.41e-01 81.8% 33.2%
3fo5B00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.68 42.0 3.29e-01 82.7% 29.6%
4kz1A00 3.10.450.230 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein 0.55 34.0 3.22e-01 80.9% 51.1%
1lshA01 2.30.230.10 Mainly Beta › Roll › Lipovitellin-phosvitin complex; beta-sheet shell regions › Lipovitellin; beta-sheet shell regions, chain A 0.54 40.0 3.03e-01 78.2% 33.1%
3ub1A01 3.10.450.540 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 36.0 3.37e-01 82.7% 55.1%
2cc3A00 3.10.450.230 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein 0.54 34.0 3.15e-01 78.2% 49.3%
4kghA00 3.15.10.10 Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 1 › Bactericidal permeability-increasing protein; domain 1 0.53 46.0 3.92e-01 99.1% 88.1%
1lshA03 2.20.50.20 Mainly Beta › Single Sheet › Outer Surface Protein A; domain 2 › Lipovitellin. Chain A, domain 3 0.52 31.0 3.31e-01 99.1% 65.3%
3uezC02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 29.0 3.26e-01 70.9% 71.1%
2v8qA01 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.51 29.0 3.19e-01 85.5% 66.3%
4h61A00 3.10.450.580 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Mediator complex, subunit Med6 0.50 32.0 3.00e-01 91.8% 50.4%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3206139 2.1.1.23 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › POT1 0.54 34.0 3.13e-01 90.0% 48.3%
5016404 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 0.52 29.0 3.34e-01 72.7% 73.8%
D2 medium residues 93-191
PDB
Domain cluster: rep: MW248466.1__QQM14682.1__CPT_MarsHill_148__00145__D87-185
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1lb6A00 2.60.210.10 Mainly Beta › Sandwich › Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2; Chain A › Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2; Chain A 0.55 48.0 4.22e-01 100.0% 98.1%
1chmA02 3.90.230.10 Alpha Beta › Alpha-Beta Complex › Creatine Amidinohydrolase › Creatinase/methionine aminopeptidase superfamily 0.53 47.0 3.57e-01 100.0% 93.1%
5cfvA01 3.30.700.10 Alpha Beta › 2-Layer Sandwich › Glycoprotein, Type 4 Pilin › Glycoprotein, Type 4 Pilin 0.53 45.0 4.46e-01 97.0% 98.1%
4rljB00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.52 36.0 3.23e-01 72.7% 94.6%
4dj3B01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.51 34.0 3.34e-01 77.8% 62.2%
2f1xB00 2.60.210.10 Mainly Beta › Sandwich › Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2; Chain A › Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2; Chain A 0.51 44.0 3.96e-01 99.0% 92.3%
1gydB00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.50 40.0 2.88e-01 86.9% 90.8%
1xipA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.50 39.0 2.71e-01 84.8% 88.8%
1x7dB01 3.30.1780.10 Alpha Beta › 2-Layer Sandwich › ornithine cyclodeaminase, domain 1 › ornithine cyclodeaminase, domain 1 0.50 41.0 3.46e-01 100.0% 52.1%
1omoA01 3.30.1780.10 Alpha Beta › 2-Layer Sandwich › ornithine cyclodeaminase, domain 1 › ornithine cyclodeaminase, domain 1 0.50 42.0 3.66e-01 100.0% 60.4%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3995413 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.58 49.0 3.82e-01 96.0% 61.4%
1549078 274.1.1.14 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits › ComP_DUS 0.57 46.0 4.87e-01 98.0% 100.0%
5024225 2007.1.1.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like 0.53 44.0 3.23e-01 90.9% 33.8%
3734700 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.53 40.0 3.42e-01 81.8% 57.1%
3801858 252.1.1.0 ↗ a+b two layers › DNA-binding domain › Methyl-CpG-binding domain, MBD › Methyl-CpG-binding domain, MBD 0.51 27.0 3.33e-01 86.9% 83.3%
4977797 222.1.1.0 ↗ a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase 0.51 37.0 3.29e-01 75.8% 95.0%
4019479 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.50 41.0 2.86e-01 87.9% 28.7%