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SR-VP_0-2_scaffold_141_4556078_prodigal-single.1__X__X__00069

Bact-Vir

SR-VP_0-2_scaffold_141_4556078_prodigal-single.1__X__X__00069

Identity

Kingdom:
phage

Quality

78.3 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 32-98
PDB
Domain cluster: representative
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2l8kA00 3.30.1330.220 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Arterivirus nonstructural protein 7 alpha 0.80 51.0 4.10e-01 100.0% 35.8%
2ra1A04 2.60.40.1220 Mainly Beta › Sandwich › Immunoglobulin-like › 0.66 49.0 4.32e-01 100.0% 54.6%
4f3lA02 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.61 54.0 4.49e-01 100.0% 95.0%
2nwaA01 2.40.240.20 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 0.60 44.0 4.27e-01 100.0% 70.7%
4m4xA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.59 52.0 4.27e-01 100.0% 87.3%
2rdeA02 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.59 48.0 4.06e-01 100.0% 54.1%
3d9rB00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.59 46.0 3.72e-01 86.6% 93.2%
1uscA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.58 53.0 3.85e-01 100.0% 53.9%
3b5mA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.58 52.0 4.30e-01 100.0% 66.4%
3nfwA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.58 53.0 3.82e-01 100.0% 52.5%
4rt0A00 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.58 47.0 4.07e-01 100.0% 56.9%
4f07E00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.58 52.0 3.99e-01 100.0% 62.4%
3pftA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.58 52.0 3.94e-01 100.0% 60.3%
3kewB02 3.30.980.10 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › Threonyl-trna Synthetase; Chain A, domain 2 0.58 49.0 3.95e-01 100.0% 93.1%
5choF00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.57 52.0 3.89e-01 100.0% 61.9%
3ewkA03 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.57 49.0 4.28e-01 100.0% 98.1%
2ecuA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.57 52.0 3.95e-01 100.0% 57.7%
4l82A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.57 51.0 3.87e-01 100.0% 62.8%
2r0xA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.57 49.0 3.81e-01 100.0% 64.1%
1ejeA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.57 49.0 3.60e-01 100.0% 54.2%
3cb0D00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.57 51.0 3.83e-01 100.0% 61.5%
1yoaA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.57 51.0 3.84e-01 100.0% 63.5%
1rz1A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 51.0 3.88e-01 100.0% 60.5%
2cc3A00 3.10.450.230 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein 0.56 44.0 3.52e-01 88.1% 93.1%
8ct0B01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 51.0 3.77e-01 100.0% 57.8%
2qckA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 49.0 3.82e-01 100.0% 63.6%
2v9kA04 3.30.70.3190 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 48.0 4.16e-01 100.0% 65.1%
4xhyA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 48.0 3.69e-01 100.0% 60.2%
2zylA02 3.90.380.10 Alpha Beta › Alpha-Beta Complex › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 0.56 40.0 2.86e-01 77.6% 85.7%
1i0rA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 50.0 3.75e-01 100.0% 61.5%
4j37A02 3.30.70.660 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Pseudouridine synthase I, catalytic domain, C-terminal subdomain 0.55 47.0 3.49e-01 100.0% 45.8%
2nr4A01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 48.0 3.87e-01 100.0% 88.0%
1uisA00 2.40.155.10 Mainly Beta › Beta Barrel › Green Fluorescent Protein › Green fluorescent protein 0.55 46.0 3.31e-01 100.0% 79.0%
2pslA00 2.40.155.10 Mainly Beta › Beta Barrel › Green Fluorescent Protein › Green fluorescent protein 0.55 46.0 3.34e-01 100.0% 81.1%
4p02A03 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.54 45.0 3.86e-01 100.0% 59.0%
3zduA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.54 43.0 4.14e-01 100.0% 75.0%
3eeeA00 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.54 42.0 3.09e-01 100.0% 30.9%
4mt4A00 1.20.1600.10 Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.53 41.0 2.54e-01 86.6% 48.7%
2jl6101 2.20.150.30 Mainly Beta › Single Sheet › putative 5-dehydro-2- deoxygluconokinase like fold › 0.53 31.0 3.62e-01 74.6% 88.4%
2d37A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.53 46.0 3.56e-01 100.0% 60.6%
3bnkA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.53 45.0 3.37e-01 100.0% 53.8%
3ub1A01 3.10.450.540 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 40.0 3.29e-01 86.6% 89.0%
2r6vA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.52 45.0 3.44e-01 100.0% 61.0%
2dc0A00 3.90.1300.10 Alpha Beta › Alpha-Beta Complex › Amidase signature (AS) enzymes › Amidase signature (AS) domain 0.52 44.0 2.75e-01 100.0% 57.1%
1xqbA01 2.40.30.70 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › YaeB-like 0.51 43.0 3.79e-01 100.0% 67.0%
3ijtB00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.51 41.0 3.22e-01 92.5% 41.3%
3zugB02 2.40.30.30 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Riboflavin kinase-like 0.51 43.0 3.49e-01 100.0% 50.0%
5ja2A01 3.30.559.30 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Nonribosomal peptide synthetase, condensation domain 0.51 40.0 2.77e-01 89.6% 69.3%
2aznA00 3.40.430.10 Alpha Beta › 3-Layer(aba) Sandwich › Dihydrofolate Reductase, subunit A › Dihydrofolate Reductase, subunit A 0.51 44.0 3.12e-01 100.0% 97.7%
1j5uA01 3.55.10.10 Alpha Beta › 3-Layer(bab) Sandwich › Archease, Possible Chaperone; Chain: A; domain 1 › Archease domain 0.51 44.0 3.71e-01 100.0% 98.3%
2xh6B01 2.170.15.20 Mainly Beta › Beta Complex › Proaerolysin; Chain A, domain 3 › 0.50 40.0 3.24e-01 98.5% 67.9%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
184761 3458.1.1.1 ↗ a+b two layers › Nonstructural protein 7 alpha › Nonstructural protein 7 alpha › Nonstructural protein 7 alpha › Arteri_nsp7a 0.80 51.0 4.10e-01 100.0% 35.8%
3474598 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.68 42.0 3.62e-01 79.1% 40.0%
4992080 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.67 51.0 4.17e-01 100.0% 42.2%
4214150 1.1.5.25 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.66 50.0 4.26e-01 100.0% 50.0%
3900933 11.1.1.54 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CBM_21 0.66 54.0 4.22e-01 100.0% 42.9%
3971176 1.1.5.25 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.64 50.0 3.72e-01 100.0% 32.6%
4963083 1.1.5.17 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › DUF447_N 0.64 58.0 4.05e-01 100.0% 45.9%
5051220 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.64 48.0 4.47e-01 100.0% 63.3%
3732294 243.1.1.78 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › PF26534 0.64 49.0 3.72e-01 83.6% 86.8%
3963092 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.63 45.0 4.00e-01 100.0% 52.6%
3479596 304.102.1.1 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 0.62 54.0 3.45e-01 100.0% 35.3%
3174023 304.102.1.1 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 0.61 53.0 3.61e-01 100.0% 42.7%
3588483 243.1.1.0 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.61 45.0 3.69e-01 82.1% 62.7%
4978345 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.59 53.0 3.94e-01 100.0% 61.2%
5014364 1.1.7.28 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › HAS-barrel 0.59 51.0 4.11e-01 100.0% 69.6%
3594026 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.59 35.0 2.89e-01 79.1% 31.7%
1217791 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.58 53.0 3.89e-01 100.0% 55.6%
70 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.58 53.0 3.85e-01 100.0% 53.9%
3587815 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.58 41.0 3.58e-01 100.0% 47.6%
3786062 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.58 52.0 3.84e-01 100.0% 60.5%
4348615 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.58 53.0 3.80e-01 100.0% 50.8%
3964364 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.58 53.0 3.90e-01 100.0% 59.4%
3959626 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.58 52.0 3.89e-01 100.0% 57.0%
300370 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.58 52.0 3.95e-01 100.0% 59.6%
3279401 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.57 52.0 3.86e-01 100.0% 57.0%
3598687 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.57 51.0 3.86e-01 100.0% 61.9%
3829961 243.3.1.26 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › protein_MS5 0.57 47.0 3.58e-01 94.0% 75.3%
72 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.57 51.0 3.88e-01 100.0% 63.5%
4882518 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.57 50.0 3.84e-01 100.0% 63.9%
1064500 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.57 51.0 3.84e-01 100.0% 61.3%
5040595 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.57 50.0 3.80e-01 100.0% 63.7%
4926809 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.57 51.0 3.82e-01 100.0% 63.1%
3177162 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 45.0 3.94e-01 100.0% 56.4%
164880 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.56 49.0 3.76e-01 100.0% 60.4%
4318524 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.56 48.0 3.69e-01 100.0% 59.4%
4680590 2.21.1.4 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › SSO2105_N 0.55 48.0 3.52e-01 100.0% 90.8%
4487975 330.10.1.1 ↗ a+b two layers › dsRBD-like › Heterocyclase TruD C-terminal domain › Heterocyclase TruD C-terminal domain › YcaO 0.55 43.0 3.82e-01 100.0% 58.0%
4030184 1.1.9.0 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.55 48.0 3.26e-01 100.0% 31.5%
5040912 210.1.2.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Penicillin acylase, catalytic domain › Penicil_amidase 0.55 43.0 2.50e-01 89.6% 40.6%
None — 0.55 48.0 3.15e-01 95.5% 30.7%
4217288 10.3.1.0 ↗ beta sandwiches › jelly-roll › TNF-like › TNF-like 0.55 48.0 3.56e-01 100.0% 37.2%
3611250 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.55 48.0 3.79e-01 100.0% 71.7%
4023951 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.54 46.0 2.95e-01 97.0% 40.0%
4551218 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.54 47.0 3.57e-01 100.0% 57.0%
5043252 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.53 46.0 3.46e-01 100.0% 58.3%
4033208 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 45.0 3.63e-01 100.0% 93.0%
4934590 319.1.1.0 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.53 45.0 4.03e-01 98.5% 66.3%
3509180 9.2.1.3 ↗ beta barrels › Lipocalins/Streptavidin › Avidin/Streptavidin › Avidin/Streptavidin › FBO_C 0.53 39.0 3.05e-01 85.1% 77.7%
3710799 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.53 45.0 2.78e-01 100.0% 28.9%
4975225 2011.1.1.11 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases › Peptidase_M42 0.53 39.0 2.60e-01 80.6% 64.7%
4024636 304.107.1.1 ↗ a+b two layers › Alpha-beta plaits › Aminomethyltransferase folate-binding domain › Aminomethyltransferase folate-binding domain › GCV_T 0.53 45.0 2.97e-01 100.0% 28.6%
3759236 223.1.1.77 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › Intu_longin_3 0.52 44.0 3.41e-01 100.0% 71.2%
3828275 219.1.1.71 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › PDDEXK_6 0.52 38.0 2.92e-01 80.6% 31.1%
4322066 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.52 46.0 3.46e-01 100.0% 55.3%
3243970 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.52 45.0 4.00e-01 100.0% 67.0%
165640 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.52 45.0 3.40e-01 100.0% 58.1%
4469533 1.1.9.5 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › LON_substr_bdg 0.51 45.0 3.04e-01 100.0% 30.0%
3699156 5.1.3.28 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › BNR_3 0.51 43.0 2.69e-01 100.0% 33.3%
4026988 1.1.9.0 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.50 42.0 2.93e-01 100.0% 30.4%