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PLM4_65_coex_sep16_scaffold_0_prodigal-single.1__X__X__00592

Bact-Vir

PLM4_65_coex_sep16_scaffold_0_prodigal-single.1__X__X__00592

Identity

Kingdom:
phage

Quality

52.1 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 65-106
PDB
Domain cluster: representative
CATH (56)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5jozA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.77 64.0 3.78e-01 100.0% 12.8%
4adiA02 3.30.67.20 Alpha Beta › 2-Layer Sandwich › Viral Envelope Glycoprotein; domain 2 › Rubella membrane glycoprotein E1, domain 2 0.74 61.0 4.92e-01 97.6% 96.6%
3c6kA02 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.74 53.0 4.91e-01 100.0% 58.9%
3ed3A01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.74 51.0 3.64e-01 73.8% 71.9%
3gjyA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.74 55.0 3.28e-01 100.0% 12.2%
3vcaA02 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.73 55.0 4.01e-01 83.3% 80.7%
1ekgA00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.73 57.0 4.15e-01 95.2% 31.1%
2e5wA01 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.72 52.0 4.80e-01 100.0% 58.9%
1inlC02 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.71 49.0 4.34e-01 97.6% 48.4%
7wffb01 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.70 58.0 3.51e-01 95.2% 37.7%
4fdtB00 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.70 60.0 3.48e-01 100.0% 88.9%
1b69A00 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.70 49.0 4.18e-01 73.8% 66.7%
3pg4A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.70 59.0 3.73e-01 100.0% 87.8%
2o07A01 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.70 50.0 4.54e-01 100.0% 55.9%
5hx0A00 2.120.10.10 Mainly Beta › 6 Propeller › Neuraminidase › 0.70 60.0 3.47e-01 100.0% 16.7%
2cmgA01 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.69 49.0 4.69e-01 100.0% 62.7%
2b2cA01 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.69 49.0 4.38e-01 100.0% 51.6%
3gkeA01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.69 52.0 3.74e-01 85.7% 73.8%
2zylA01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.69 53.0 3.75e-01 85.7% 71.1%
1uirA01 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.68 48.0 4.51e-01 97.6% 59.6%
1sgoA01 3.30.2280.10 Alpha Beta › 2-Layer Sandwich › copper amine oxidase-like fold › Hypothetical protein (hspc210) 0.68 54.0 4.16e-01 95.2% 56.5%
1iy9A02 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.67 46.0 4.41e-01 97.6% 59.6%
5ic7A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.67 54.0 3.16e-01 100.0% 11.2%
1mmuA00 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.67 56.0 3.33e-01 97.6% 49.9%
1jyaB00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.66 58.0 4.16e-01 100.0% 55.4%
1y96A00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.66 45.0 3.64e-01 71.4% 39.5%
1jlxA02 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.66 55.0 3.93e-01 100.0% 60.7%
4huzA02 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.66 49.0 3.46e-01 85.7% 63.6%
1ulvA01 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.66 51.0 3.18e-01 90.5% 56.6%
3c4bA02 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.65 56.0 4.85e-01 100.0% 67.2%
4bwgD00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.65 57.0 4.34e-01 100.0% 77.3%
7q04F01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.65 56.0 4.16e-01 100.0% 84.4%
3oajA02 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.65 48.0 3.46e-01 88.1% 63.9%
4jn7A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.65 55.0 4.02e-01 100.0% 76.5%
7ylsB01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.64 54.0 4.06e-01 97.6% 84.3%
2gu3A02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.64 53.0 4.77e-01 100.0% 68.3%
5cq2A02 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.63 42.0 4.19e-01 92.9% 65.1%
2k4rA00 2.40.20.10 Mainly Beta › Beta Barrel › Plasminogen Kringle 4 › Plasminogen Kringle 4 0.63 44.0 3.71e-01 76.2% 77.9%
3o4fC01 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.63 44.0 4.19e-01 97.6% 60.8%
4rt5A00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.62 43.0 3.35e-01 81.0% 30.7%
3ebwA01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.62 54.0 3.75e-01 100.0% 38.0%
3nixB00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.62 49.0 2.83e-01 90.5% 17.5%
2js3A01 1.10.287.780 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ITPase-like domains 0.62 43.0 3.63e-01 76.2% 53.9%
7fjlA01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.62 51.0 3.68e-01 100.0% 59.9%
2db2A01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.61 52.0 4.14e-01 100.0% 47.9%
1zarA02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.61 49.0 4.13e-01 100.0% 90.1%
5jk0B01 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.59 50.0 3.37e-01 100.0% 66.5%
3uxuA00 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.58 47.0 3.31e-01 100.0% 56.6%
4ok4A02 2.70.98.70 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.58 49.0 2.91e-01 100.0% 28.8%
3ednA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.57 43.0 3.23e-01 95.2% 75.4%
7o0eA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.56 46.0 3.82e-01 97.6% 96.4%
1ii7A01 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.56 42.0 2.71e-01 90.5% 23.3%
7a0kA01 2.130.10.30 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Regulator of chromosome condensation 1/beta-lactamase-inhibitor protein II 0.56 45.0 2.75e-01 100.0% 14.3%
5i4dA02 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.55 39.0 3.47e-01 85.7% 84.2%
1jv2B04 4.10.1240.30 Few Secondary Structures › Irregular › Hormone receptor fold › 0.55 45.0 3.67e-01 97.6% 93.0%
3ne5B01 2.40.420.20 Mainly Beta › Beta Barrel › conserved putative lor/sdh protein from methanococcus maripaludis s2 fold › 0.54 44.0 3.59e-01 97.6% 81.4%
ECOD (53)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3254426 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.82 60.0 4.13e-01 100.0% 24.4%
5038962 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.81 52.0 5.11e-01 76.2% 62.2%
5035552 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.80 67.0 4.04e-01 100.0% 15.5%
5036758 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.80 66.0 3.94e-01 100.0% 13.6%
3803371 5.1.3.6 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Kelch_1 0.79 62.0 3.68e-01 100.0% 12.3%
4971601 241.14.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › SARS-unique domain-C › SARS-unique domain-C 0.79 60.0 5.17e-01 100.0% 51.4%
4211209 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.78 54.0 4.64e-01 73.8% 72.3%
4408024 325.1.7.3 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › Apocytochr_F_C 0.77 53.0 4.65e-01 71.4% 51.7%
3896169 5.1.5.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40 0.75 56.0 3.31e-01 100.0% 10.1%
4039507 3699.1.1.1 ↗ beta meanders › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermine_synt_N 0.75 54.0 4.98e-01 100.0% 60.0%
3750824 5.1.5.75 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40, ANAPC4_WD40 0.74 54.0 3.16e-01 100.0% 9.9%
3230503 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.74 60.0 3.87e-01 100.0% 20.0%
3910933 3699.1.1.1 ↗ beta meanders › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermine_synt_N 0.74 53.0 4.79e-01 100.0% 55.0%
1279538 2003.1.5.13 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth 0.74 55.0 3.28e-01 100.0% 12.2%
3736787 331.3.1.2 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Ring_hydroxyl_A 0.73 56.0 3.35e-01 83.3% 16.8%
3328685 3699.1.1.1 ↗ beta meanders › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermine_synt_N 0.73 52.0 4.59e-01 100.0% 50.8%
4241924 4.1.1.93 ↗ beta barrels › SH3 › SH3 › SH3 › 40S_S4_C 0.73 49.0 3.85e-01 76.2% 33.3%
4407054 3699.1.1.1 ↗ beta meanders › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermine_synt_N 0.72 52.0 4.68e-01 100.0% 55.0%
3295376 4.26.1.0 ↗ beta barrels › SH3 › Chromatin protein Cren7 › Chromatin protein Cren7 0.70 53.0 5.57e-01 100.0% 100.0%
5062942 7089.1.1.0 ↗ a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD 0.70 54.0 4.99e-01 95.2% 65.5%
3308935 5.1.3.67 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.70 58.0 3.40e-01 100.0% 11.8%
4937428 3504.3.1.1 ↗ beta barrels › MutM N-terminal domain-like › Fibrinogen binding protein N-terminal domain › Fibrinogen binding protein N-terminal domain › NFACT_N 0.69 53.0 3.70e-01 100.0% 24.8%
4336845 3699.1.1.1 ↗ beta meanders › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermine_synt_N 0.69 49.0 4.45e-01 100.0% 55.0%
5073475 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.68 48.0 2.85e-01 76.2% 42.3%
4076873 3699.1.1.1 ↗ beta meanders › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermine_synt_N 0.66 47.0 4.40e-01 100.0% 60.0%
5081762 2002.1.1.0 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels 0.66 54.0 3.08e-01 95.2% 89.5%
4960839 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.66 52.0 4.06e-01 92.9% 98.0%
3479395 64.1.1.0 ↗ beta meanders › WW domain-like › WW domain › WW domain 0.66 47.0 5.00e-01 97.6% 100.0%
3356297 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.65 49.0 3.56e-01 97.6% 27.7%
3942731 66.1.1.1 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain › Rieske 0.64 55.0 4.39e-01 100.0% 93.3%
4547005 66.1.1.1 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain › Rieske 0.64 55.0 3.82e-01 100.0% 56.0%
3466771 375.3.1.2 ↗ few secondary structure elements › Rubredoxin-like › CSL zinc finger › CSL zinc finger › zf-CSL 0.64 46.0 4.30e-01 100.0% 61.8%
5038003 7089.1.1.0 ↗ a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD 0.63 51.0 4.85e-01 95.2% 78.0%
3927677 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.63 48.0 4.70e-01 92.9% 77.8%
4012540 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.63 44.0 3.75e-01 76.2% 77.3%
3987038 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.63 47.0 3.44e-01 100.0% 28.8%
4110072 375.1.4.1 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain › PyrI_C 0.63 52.0 4.86e-01 97.6% 87.3%
5002505 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.62 51.0 4.64e-01 100.0% 68.3%
3987739 207.4.1.6 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › C-CAP/cofactor C-like › C-CAP/cofactor C-like › CFSR 0.62 52.0 3.30e-01 100.0% 24.2%
5078949 247.1.1.12 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B_3 0.62 49.0 3.15e-01 95.2% 32.4%
3225518 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.60 44.0 2.86e-01 100.0% 15.1%
2794515 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.58 47.0 2.78e-01 100.0% 10.7%
3278853 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.57 46.0 4.17e-01 100.0% 69.2%
4938040 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.57 45.0 3.25e-01 100.0% 39.3%
3964664 2.4.1.0 ↗ beta barrels › OB-fold › MOP-like › MOP-like 0.56 45.0 3.98e-01 95.2% 67.6%
5013584 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.56 43.0 3.79e-01 92.9% 61.4%
4988939 244.3.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › SufE/NifU › SufE/NifU 0.55 44.0 3.91e-01 100.0% 60.0%
3927687 101.1.1.76 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.55 42.0 3.46e-01 97.6% 61.1%
3656952 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.54 43.0 3.33e-01 100.0% 43.5%
3957126 244.2.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD/NAD-linked reduatases, dimerisation (C-terminal) domain › FAD/NAD-linked reduatases, dimerisation (C-terminal) domain 0.53 43.0 3.50e-01 95.2% 64.7%
3279316 244.2.1.5 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD/NAD-linked reduatases, dimerisation (C-terminal) domain › FAD/NAD-linked reduatases, dimerisation (C-terminal) domain › Reductase_C 0.53 43.0 3.62e-01 95.2% 73.3%
682 4184.1.1.2 ↗ beta barrels › MFPT repeat › MFPT repeat › MFPT repeat › MFP2b 0.52 41.0 3.36e-01 100.0% 44.2%
4488182 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.52 38.0 3.85e-01 100.0% 95.0%