←Back to structures

sw_7_scaffold_1_prodigal-single.1__X__X__00124

Bact-Vir

sw_7_scaffold_1_prodigal-single.1__X__X__00124

Identity

Kingdom:
phage

Quality

71.3 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 high residues 3-83
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1vbkA01 3.30.70.1510 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › THUMP domain-like 0.79 53.0 5.35e-01 92.6% 68.7%
1u02A02 3.30.70.1020 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Trehalose-6-phosphate phosphatase related protein; domain 2 0.73 57.0 5.89e-01 100.0% 89.5%
5dx9A01 3.30.70.1020 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Trehalose-6-phosphate phosphatase related protein; domain 2 0.71 56.0 5.94e-01 95.1% 95.8%
6vudA02 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.70 56.0 5.77e-01 100.0% 93.3%
3dxqA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.68 47.0 4.70e-01 95.1% 69.9%
2amyA02 3.30.1240.20 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein, Haloacid Dehalogenase-like Hydrolase; Chain: A; domain 2 › Eukaryotic phosphomannomutase, cap domain 0.67 60.0 5.56e-01 100.0% 87.3%
3onqA02 3.30.70.2730 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.67 49.0 4.97e-01 93.8% 79.0%
1dcoA00 3.30.1360.20 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Transcriptional coactivator/pterin dehydratase 0.65 45.0 4.24e-01 82.7% 59.6%
3cueB00 3.30.1380.20 Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › Trafficking protein particle complex subunit 3 0.64 56.0 4.50e-01 100.0% 56.9%
7xhzA01 3.30.1240.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein, Haloacid Dehalogenase-like Hydrolase; Chain: A; domain 2 › 0.64 58.0 4.99e-01 100.0% 98.4%
4lowA00 3.30.1360.20 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Transcriptional coactivator/pterin dehydratase 0.63 42.0 4.20e-01 86.4% 66.7%
4on1A01 2.40.128.470 Mainly Beta › Beta Barrel › Lipocalin › 0.63 43.0 3.61e-01 76.5% 41.7%
3oksA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.62 49.0 3.84e-01 100.0% 39.8%
2iboA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 42.0 4.12e-01 92.6% 64.0%
6g4bA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.62 48.0 3.86e-01 100.0% 40.9%
3n5mB01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.61 51.0 4.04e-01 100.0% 43.2%
3dxvA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.61 49.0 4.10e-01 100.0% 48.7%
1lxjA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 43.0 4.04e-01 92.6% 59.2%
3fcrA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.60 49.0 3.88e-01 100.0% 41.3%
2z9eA02 3.30.70.2590 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 53.0 4.80e-01 100.0% 92.0%
3kewB02 3.30.980.10 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › Threonyl-trna Synthetase; Chain A, domain 2 0.60 52.0 4.36e-01 100.0% 91.7%
1xviA02 3.30.980.20 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › Putative mannosyl-3-phosphoglycerate phosphatase; domain 2 0.59 53.0 5.08e-01 100.0% 90.4%
3a8uX01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.59 43.0 3.53e-01 100.0% 40.0%
4q5eA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.58 45.0 4.68e-01 93.8% 89.3%
5g4iB01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.58 46.0 3.75e-01 100.0% 44.4%
6erkA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.58 40.0 3.30e-01 100.0% 37.1%
4uoiC00 3.30.160.890 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Hepatitis C virus envelope glycoprotein E1, chain C 0.57 28.0 3.40e-01 91.4% 72.5%
4e1oA03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.57 43.0 4.06e-01 100.0% 67.3%
4q6rA02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.57 39.0 3.47e-01 100.0% 45.8%
3ehgA00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.57 50.0 4.38e-01 100.0% 66.4%
3c0wA02 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.56 44.0 4.10e-01 97.5% 68.0%
4fh3A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.56 47.0 4.18e-01 100.0% 64.0%
1xg9A02 3.10.25.20 Alpha Beta › Roll › Methionyl-tRNA Fmet Formyltransferase; Chain A, domain 2 › 0.54 34.0 3.84e-01 88.9% 83.9%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.54 45.0 3.26e-01 93.8% 33.9%
7xinA03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.54 44.0 3.99e-01 100.0% 67.0%
2plgA01 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.53 40.0 3.48e-01 84.0% 50.8%
4qpkB02 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.53 45.0 3.91e-01 100.0% 73.1%
5jk0B01 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.52 44.0 3.57e-01 100.0% 79.8%
1u5tA02 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 0.52 39.0 4.02e-01 82.7% 97.3%
5hvqC01 3.90.1150.220 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › 0.51 41.0 4.12e-01 88.9% 96.2%
4hw0C00 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 0.50 36.0 3.52e-01 85.2% 66.7%
2pliA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.50 35.0 3.52e-01 74.1% 95.2%
1ucrB00 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 0.50 39.0 4.02e-01 87.7% 92.0%
ECOD (57)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3839295 3012.1.1.0 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.75 58.0 6.17e-01 98.8% 95.7%
2122949 2006.1.1.3 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Trehalose_PPase 0.75 58.0 4.11e-01 100.0% 27.9%
3951206 3012.1.1.1 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › Trehalose_PPase 0.74 58.0 5.86e-01 100.0% 85.0%
3958915 3012.1.1.0 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.73 57.0 5.78e-01 100.0% 85.0%
5070603 2006.1.1.7 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › S6PP 0.73 61.0 4.24e-01 100.0% 27.9%
4980414 3012.1.1.0 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.72 59.0 6.00e-01 100.0% 90.0%
4242475 304.28.1.4 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › SecD_1st 0.72 50.0 5.11e-01 93.8% 75.0%
3450997 3012.1.1.1 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › Trehalose_PPase 0.71 60.0 5.63e-01 100.0% 75.0%
3670277 3012.1.1.1 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › Trehalose_PPase 0.71 59.0 6.11e-01 100.0% 97.3%
3727831 3012.1.1.1 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › Trehalose_PPase 0.71 58.0 5.75e-01 100.0% 85.9%
4996212 2006.1.1.3 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Trehalose_PPase 0.71 58.0 4.09e-01 100.0% 30.0%
3626537 3012.1.1.5 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › T6PP_C 0.70 63.0 6.00e-01 100.0% 87.4%
3460668 3012.1.1.1 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › Trehalose_PPase 0.70 59.0 6.10e-01 98.8% 98.7%
3411894 3012.1.1.0 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.70 53.0 5.37e-01 100.0% 83.7%
4659276 2006.1.1.11 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase_3 0.69 47.0 3.47e-01 100.0% 25.8%
4951829 3012.1.1.1 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › Trehalose_PPase 0.69 58.0 6.01e-01 100.0% 98.7%
None — 0.69 59.0 4.04e-01 100.0% 27.8%
3807514 2006.1.1.3 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Trehalose_PPase 0.69 58.0 4.01e-01 100.0% 27.3%
3504738 3012.1.1.5 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › T6PP_C 0.69 61.0 5.83e-01 100.0% 89.5%
3733471 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.68 49.0 4.59e-01 81.5% 61.0%
1125246 306.3.1.2 ↗ a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like › Img2 0.68 48.0 4.96e-01 75.3% 77.6%
3782093 3012.1.1.1 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › Trehalose_PPase 0.68 57.0 5.67e-01 100.0% 88.2%
3509920 3012.1.1.5 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › T6PP_C 0.68 60.0 5.81e-01 97.5% 91.1%
3220687 3012.1.1.5 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › T6PP_C 0.68 60.0 5.77e-01 100.0% 88.4%
4025741 310.2.1.1 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › RRF 0.68 56.0 4.29e-01 100.0% 40.6%
3516769 3012.1.1.5 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › T6PP_C 0.67 59.0 5.69e-01 100.0% 88.4%
5072327 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.66 33.0 2.80e-01 84.0% 27.4%
4943463 304.43.1.0 ↗ a+b two layers › Alpha-beta plaits › Hypothetical protein TT1725 › Hypothetical protein TT1725 0.64 49.0 4.60e-01 91.4% 67.0%
3955969 246.2.1.19 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › PGA_cap 0.63 55.0 3.60e-01 100.0% 29.9%
4277628 304.136.1.1 ↗ a+b two layers › Alpha-beta plaits › Oligo-peptide binding protein (OPPA) insertion domain › Oligo-peptide binding protein (OPPA) insertion domain › SBP_bac_5 0.63 49.0 4.42e-01 85.2% 74.8%
3595128 320.1.1.0 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain 0.62 43.0 4.73e-01 90.1% 89.2%
3955192 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.62 47.0 4.47e-01 93.8% 69.5%
4937620 3012.1.1.0 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.62 48.0 5.00e-01 100.0% 98.6%
1503771 3016.1.1.2 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › Aminotran_3 0.61 51.0 4.66e-01 100.0% 68.5%
5032337 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.61 45.0 4.56e-01 92.6% 80.0%
2327277 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.60 45.0 3.71e-01 80.2% 44.5%
4961406 304.136.1.0 ↗ a+b two layers › Alpha-beta plaits › Oligo-peptide binding protein (OPPA) insertion domain › Oligo-peptide binding protein (OPPA) insertion domain 0.60 51.0 4.81e-01 91.4% 82.1%
3877589 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 37.0 4.19e-01 81.5% 85.0%
4352401 314.1.1.11 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA_synthFbeta 0.59 52.0 3.82e-01 100.0% 87.6%
3998053 320.1.1.0 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain 0.59 49.0 5.05e-01 91.4% 100.0%
4296175 314.1.1.11 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA_synthFbeta 0.59 52.0 3.85e-01 100.0% 91.4%
150565 316.1.1.36 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › MTPAP-like_central 0.59 53.0 4.39e-01 100.0% 60.6%
4979757 241.1.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone 0.59 49.0 4.02e-01 92.6% 48.7%
5003975 101.1.2.944 ↗ alpha arrays › HTH › HTH › winged helix domain › PF26486 0.57 40.0 4.32e-01 95.1% 90.8%
3960160 3016.1.1.2 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › Aminotran_3 0.57 48.0 4.21e-01 100.0% 62.9%
3579956 320.1.1.0 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain 0.57 44.0 4.67e-01 86.4% 97.1%
3668608 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.56 42.0 2.96e-01 80.2% 33.5%
3224886 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.55 41.0 3.88e-01 81.5% 66.3%
3489258 306.8.1.0 ↗ a+b two layers › Glucose permease domain IIB-like › TM1457-like › TM1457-like 0.55 45.0 4.19e-01 100.0% 71.4%
3986253 241.1.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone 0.54 40.0 3.55e-01 79.0% 58.3%
4948690 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 0.54 44.0 2.98e-01 92.6% 24.0%
3501531 3016.1.1.4 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › Pyridoxal_deC 0.54 43.0 3.76e-01 100.0% 56.6%
3609147 320.1.1.0 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain 0.54 42.0 3.87e-01 87.7% 64.8%
3961615 225.1.1.6 ↗ a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › HATPase_c_2 0.54 47.0 4.24e-01 100.0% 76.5%
4956396 309.1.1.15 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › LuxS/MPP-like metallohydrolase › DEAD_assoc 0.53 44.0 3.47e-01 93.8% 70.6%
4999755 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.53 40.0 3.43e-01 84.0% 95.8%
3839627 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.53 41.0 3.56e-01 87.7% 93.3%