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SR-VP_0-2_scaffold_141_316084_prodigal-single.1__X__X__00107

Bact-Vir

SR-VP_0-2_scaffold_141_316084_prodigal-single.1__X__X__00107

Identity

Kingdom:
phage

Quality

67.3 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 3-81
PDB
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3bcyA00 3.40.1000.40 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Respiratory growth induced protein 1 0.75 53.0 4.28e-01 73.4% 44.5%
4exrA01 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.70 51.0 5.08e-01 93.7% 74.1%
2wllA02 2.60.40.1400 Mainly Beta › Sandwich › Immunoglobulin-like › G protein-activated inward rectifier potassium channel 1 0.69 50.0 4.04e-01 75.9% 71.0%
3tqmA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.68 52.0 5.02e-01 100.0% 72.2%
4r80A00 3.10.450.630 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.67 47.0 4.80e-01 73.4% 78.9%
4ydzA00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.67 42.0 3.47e-01 73.4% 37.0%
2ia7A00 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.67 47.0 4.23e-01 73.4% 57.7%
1n9pA00 2.60.40.1400 Mainly Beta › Sandwich › Immunoglobulin-like › G protein-activated inward rectifier potassium channel 1 0.67 49.0 3.62e-01 77.2% 57.9%
4q6lA00 3.40.50.10610 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ABC-type transport auxiliary lipoprotein component 0.67 47.0 3.91e-01 73.4% 97.0%
2qkdA01 2.20.25.420 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › ZPR1, zinc finger domain 0.66 40.0 4.85e-01 100.0% 100.0%
2iusD01 3.30.980.40 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › 0.65 44.0 4.19e-01 72.2% 87.8%
4exrA02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.64 45.0 4.72e-01 93.7% 81.7%
4inaA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.64 43.0 3.30e-01 70.9% 94.9%
1imuA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.63 49.0 4.53e-01 100.0% 63.6%
3ecrB03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.63 44.0 4.07e-01 74.7% 55.9%
3ebwA01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.62 43.0 3.53e-01 97.5% 40.1%
3u1wA01 3.10.450.360 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.62 54.0 4.13e-01 97.5% 69.4%
4i0kA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 43.0 4.05e-01 73.4% 85.3%
1ni9A01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.61 42.0 3.49e-01 73.4% 59.6%
3ehgA00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.60 54.0 4.64e-01 100.0% 81.6%
2covG00 2.60.40.2450 Mainly Beta › Sandwich › Immunoglobulin-like › Beta-1,3-xylanase, CBM31 domain 0.60 44.0 4.24e-01 77.2% 84.1%
5oyjC01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 42.0 3.98e-01 73.4% 76.8%
3q0xA01 2.170.210.20 Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › Spindle assembly abnormal protein 6, N-terminal domain 0.60 53.0 4.28e-01 100.0% 81.9%
1ah5A03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.60 42.0 4.13e-01 74.7% 68.6%
1oygA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.60 53.0 3.33e-01 100.0% 68.4%
4gt8A00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.59 54.0 4.50e-01 100.0% 76.7%
2rqlA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.59 46.0 4.43e-01 100.0% 72.6%
1krlA00 6.20.50.130 Special › Other non-globular › N-terminal domain of TfIIb › 0.59 28.0 3.65e-01 100.0% 81.8%
1id0A00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.59 53.0 4.33e-01 100.0% 78.8%
2r39A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 42.0 3.78e-01 74.7% 83.5%
3bfmA01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.59 40.0 3.14e-01 70.9% 58.7%
3aa0B02 3.90.1150.210 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › F-actin capping protein, beta subunit 0.59 46.0 3.76e-01 93.7% 44.5%
1gkxA01 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.58 52.0 4.24e-01 100.0% 76.8%
2bs6A01 2.40.128.190 Mainly Beta › Beta Barrel › Lipocalin › 0.58 49.0 4.87e-01 100.0% 88.1%
1ln1A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.58 38.0 2.84e-01 73.4% 26.1%
3a0rA03 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.57 52.0 4.21e-01 100.0% 75.3%
1vprA03 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 43.0 3.44e-01 79.7% 96.2%
3bb9B00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.57 50.0 4.35e-01 100.0% 88.0%
4o89A02 3.30.360.20 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › RNA 3'-terminal phosphate cyclase, insert domain 0.56 43.0 4.11e-01 100.0% 70.2%
6nu7A01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.56 50.0 3.31e-01 100.0% 27.7%
5b4wA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.55 49.0 3.09e-01 100.0% 32.7%
2dc1A02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.55 47.0 4.40e-01 100.0% 79.2%
1omoA01 3.30.1780.10 Alpha Beta › 2-Layer Sandwich › ornithine cyclodeaminase, domain 1 › ornithine cyclodeaminase, domain 1 0.54 37.0 3.07e-01 70.9% 69.8%
1v0fA02 2.120.10.10 Mainly Beta › 6 Propeller › Neuraminidase › 0.54 46.0 3.09e-01 100.0% 26.3%
3al9A01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.54 48.0 2.99e-01 100.0% 32.5%
8aa0E01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.54 47.0 3.19e-01 100.0% 27.8%
2w4yA00 2.40.160.220 Mainly Beta › Beta Barrel › Porin › 0.53 43.0 3.68e-01 100.0% 56.6%
1y8cA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.52 36.0 4.06e-01 73.4% 95.0%
4u13A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.51 42.0 3.89e-01 97.5% 87.2%
7pkwA01 3.10.450.540 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.51 42.0 3.98e-01 97.5% 82.5%
2qm4A01 2.170.210.10 Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › DNA double-strand break repair and VJ recombination XRCC4, N-terminal 0.51 45.0 3.75e-01 100.0% 75.5%
ECOD (47)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3228525 241.15.1.0 a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain 0.79 55.0 4.90e-01 72.2% 53.6%
1887056 243.1.1.0 a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.72 51.0 4.41e-01 73.4% 78.3%
5077178 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) 0.70 48.0 4.68e-01 72.2% 65.6%
3972879 330.2.1.1 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › Ribosomal_S30AE 0.68 52.0 4.85e-01 100.0% 65.0%
429988 330.2.1.1 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › Ribosomal_S30AE 0.68 52.0 4.97e-01 100.0% 69.9%
5041343 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.66 51.0 5.22e-01 94.9% 88.0%
4234615 330.4.1.0 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain 0.63 41.0 4.26e-01 96.2% 70.7%
4367047 304.156.1.1 a+b two layers › Alpha-beta plaits › DNA translocase FtsK N-terminal domain › DNA translocase FtsK N-terminal domain › FtsK_alpha 0.63 48.0 4.32e-01 82.3% 97.3%
3080512 330.2.1.1 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › Ribosomal_S30AE 0.63 50.0 4.66e-01 100.0% 69.1%
4058654 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 43.0 4.05e-01 72.2% 57.6%
4074443 304.156.1.1 a+b two layers › Alpha-beta plaits › DNA translocase FtsK N-terminal domain › DNA translocase FtsK N-terminal domain › FtsK_alpha 0.62 55.0 4.95e-01 98.7% 94.5%
5037621 330.2.1.0 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) 0.62 50.0 4.73e-01 100.0% 72.6%
5047088 5.1.2.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.62 54.0 3.99e-01 100.0% 57.3%
5018718 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.62 46.0 4.97e-01 98.7% 95.4%
3965259 243.3.1.16 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › PepSY_2 0.61 46.0 4.77e-01 92.4% 85.1%
4262169 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 44.0 4.21e-01 75.9% 64.5%
4031476 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.61 54.0 4.98e-01 100.0% 82.5%
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 0.61 43.0 4.18e-01 74.7% 65.6%
3622698 5.1.3.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.61 53.0 3.54e-01 100.0% 24.4%
4945010 5.1.3.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.61 53.0 3.54e-01 98.7% 30.6%
3968678 7503.1.1.0 a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain 0.61 54.0 4.47e-01 100.0% 74.3%
4030063 243.4.1.0 a+b two layers › Cystatin-like › DsbC/DsbG N-terminal domain-like › DsbC/DsbG N-terminal domain-like 0.61 54.0 3.99e-01 100.0% 52.2%
4941364 330.2.1.0 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) 0.61 46.0 4.29e-01 98.7% 63.8%
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 0.60 43.0 4.13e-01 75.9% 67.8%
5009939 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.59 44.0 3.97e-01 77.2% 73.3%
3802876 5.1.3.67 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.59 51.0 3.48e-01 100.0% 30.2%
3709736 5.1.4.238 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › DUF7048 0.58 50.0 3.25e-01 100.0% 20.3%
4376160 225.1.1.3 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 0.58 51.0 4.06e-01 100.0% 71.5%
3468063 5.1.3.65 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › DUF295 0.57 52.0 3.39e-01 100.0% 25.8%
5029231 2004.1.1.42 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.57 44.0 2.68e-01 83.5% 23.8%
3404871 719.1.1.0 beta barrels › XRCC4, N-terminal domain-like › XRCC4, N-terminal domain › XRCC4, N-terminal domain 0.57 50.0 4.54e-01 100.0% 94.5%
3830762 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.57 43.0 4.13e-01 84.8% 69.5%
5011042 3692.1.1.0 a+b two layers › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain 0.56 37.0 3.18e-01 100.0% 41.5%
1229008 206.1.1.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.55 43.0 4.24e-01 100.0% 82.1%
3201338 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.55 44.0 3.26e-01 92.4% 49.4%
4330244 331.3.1.5 a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc 0.54 36.0 3.31e-01 77.2% 50.5%
5083728 243.1.1.0 a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.54 47.0 4.34e-01 96.2% 92.0%
5067458 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.53 36.0 4.12e-01 96.2% 100.0%
3274273 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.53 36.0 2.87e-01 73.4% 31.9%
5025792 3692.1.1.1 a+b two layers › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain › OCD_Mu_crystall 0.51 37.0 3.31e-01 98.7% 52.2%
5052872 223.2.1.5 a+b three layers › Profilin-like › profilin-like › profilin-like › Robl_LC7 0.51 42.0 3.65e-01 94.9% 97.7%
3317750 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.51 44.0 3.64e-01 100.0% 79.3%
3881671 719.1.1.2 beta barrels › XRCC4, N-terminal domain-like › XRCC4, N-terminal domain › XRCC4, N-terminal domain › XLF 0.51 45.0 3.94e-01 100.0% 91.7%
1710650 3692.1.1.0 a+b two layers › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain 0.50 36.0 3.35e-01 98.7% 58.8%
4997576 223.1.1.27 a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_10 0.50 42.0 3.79e-01 92.4% 78.2%
3216674 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.50 35.0 3.14e-01 100.0% 50.4%
4021911 7504.1.1.5 a/b three-layered sandwiches › ITPase-like › ITPase-like › ITPase-like › DUF5427 0.50 45.0 3.47e-01 100.0% 72.0%