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SR-VP_2-4_scaffold_141_2952615_prodigal-single.1__X__X__00297

Bact-Vir

SR-VP_2-4_scaffold_141_2952615_prodigal-single.1__X__X__00297

Identity

Kingdom:
phage

Quality

65.1 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 medium residues 40-99
PDB
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2x9zA02 2.60.40.1140 Mainly Beta › Sandwich › Immunoglobulin-like › Collagen-binding surface protein Cna, B-type domain 0.69 51.0 4.09e-01 98.3% 41.6%
4jdzA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.67 48.0 3.86e-01 98.3% 39.1%
5eiqA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.66 49.0 4.29e-01 100.0% 52.7%
2wanA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.66 51.0 4.25e-01 100.0% 49.0%
5utkA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.64 47.0 4.14e-01 100.0% 53.3%
5yjlB01 3.30.460.30 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Glutamyl-tRNA reductase, N-terminal domain 0.63 55.0 4.10e-01 100.0% 87.0%
4h4nA00 2.60.40.3750 Mainly Beta › Sandwich › Immunoglobulin-like › 0.62 49.0 4.90e-01 100.0% 82.3%
4j3vA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 51.0 4.22e-01 100.0% 52.4%
3d33A00 2.60.40.3080 Mainly Beta › Sandwich › Immunoglobulin-like › 0.60 46.0 3.98e-01 100.0% 53.2%
3klqA01 2.60.40.3050 Mainly Beta › Sandwich › Immunoglobulin-like › 0.60 47.0 3.83e-01 100.0% 43.7%
2vsdA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 47.0 4.09e-01 100.0% 54.8%
5d1oA02 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.60 45.0 4.23e-01 93.3% 65.8%
3sd2A01 2.60.40.3080 Mainly Beta › Sandwich › Immunoglobulin-like › 0.60 43.0 4.04e-01 98.3% 61.0%
7y8sA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 47.0 4.13e-01 100.0% 56.8%
4gxbA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.59 48.0 4.20e-01 95.0% 81.4%
1p6oA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.59 51.0 3.83e-01 100.0% 75.6%
2xf1A00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.59 44.0 3.55e-01 95.0% 40.2%
3x17A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 49.0 4.09e-01 95.0% 53.9%
3h7lA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 49.0 4.22e-01 95.0% 59.1%
2b9lA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.58 49.0 3.68e-01 96.7% 62.4%
3eqvA02 3.30.450.330 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.58 39.0 3.08e-01 70.0% 88.0%
3tp4B02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 44.0 3.85e-01 100.0% 53.8%
2l2dA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.58 37.0 3.53e-01 85.0% 53.4%
4ftxB01 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.57 39.0 3.18e-01 73.3% 96.9%
2jqzA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.57 48.0 3.83e-01 98.3% 98.5%
3r7wB02 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.56 40.0 3.27e-01 76.7% 93.2%
3eipA00 3.10.50.20 Alpha Beta › Roll › Chitinase A; domain 3 › Cloacin immunity protein 0.56 49.0 4.45e-01 100.0% 94.0%
3p1vA01 2.60.40.3250 Mainly Beta › Sandwich › Immunoglobulin-like › Peptidase M64, N-terminal domain 0.56 50.0 3.80e-01 100.0% 47.1%
3ue3A02 3.30.450.330 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.56 39.0 3.03e-01 75.0% 81.7%
1ao0A01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.56 42.0 2.76e-01 86.7% 64.3%
3oqgA00 3.40.1440.50 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › 0.55 45.0 3.40e-01 98.3% 40.3%
2pw9C03 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.54 43.0 3.40e-01 90.0% 55.1%
6x4tA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 46.0 3.79e-01 98.3% 62.6%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.54 42.0 3.97e-01 95.0% 75.6%
5eo9B01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 45.0 3.73e-01 95.0% 54.5%
1ktbA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.53 35.0 3.18e-01 95.0% 46.2%
1mg7A01 3.30.70.1000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Switch protein XOL-1, GHMP-like 0.53 42.0 3.18e-01 95.0% 79.4%
3no8A00 2.60.120.820 Mainly Beta › Sandwich › Jelly Rolls › PHR domain 0.53 43.0 3.25e-01 98.3% 35.7%
4xcmA02 3.90.1720.10 Alpha Beta › Alpha-Beta Complex › endopeptidase fold (from Nostoc punctiforme) › endopeptidase domain like (from Nostoc punctiforme) 0.52 43.0 3.56e-01 98.3% 63.4%
2uytA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 36.0 2.49e-01 75.0% 47.5%
3lo3A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 44.0 3.79e-01 95.0% 97.9%
5m59A06 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.51 45.0 3.69e-01 100.0% 53.6%
7mjrA02 2.60.120.240 Mainly Beta › Sandwich › Jelly Rolls › Protective antigen, heptamerisation domain 0.51 43.0 3.09e-01 100.0% 73.7%
1kshB00 2.70.50.40 Mainly Beta › Distorted Sandwich › Coagulation Factor XIII; Chain A, domain 1 › GMP phosphodiesterase, delta subunit 0.51 43.0 3.35e-01 98.3% 61.3%
4c23B02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.51 38.0 2.60e-01 100.0% 21.4%
2a90A01 3.30.720.50 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.50 41.0 3.68e-01 100.0% 87.8%
4kq7A02 2.60.120.1390 Mainly Beta › Sandwich › Jelly Rolls › Protein of unknown function DUF2961 0.50 42.0 3.00e-01 100.0% 60.7%
ECOD (66)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4959201 815.1.1.1 a+b two layers › Chromosomal protein MC1 › Chromosomal protein MC1 › Chromosomal protein MC1 › MC1 0.78 54.0 4.64e-01 95.0% 46.3%
3858824 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.73 55.0 5.21e-01 100.0% 68.6%
5009313 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.71 51.0 4.60e-01 98.3% 56.2%
3247147 5.1.12.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › PERK and Ire1 luminal domains 0.70 49.0 3.07e-01 100.0% 14.4%
3630663 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.70 53.0 4.46e-01 100.0% 49.0%
3600334 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.70 50.0 4.38e-01 100.0% 51.1%
2123014 10.12.1.0 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.70 46.0 3.29e-01 98.3% 23.8%
3633409 10.2.1.0 beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.67 45.0 4.08e-01 95.0% 52.5%
3923896 10.1.1.0 beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.67 51.0 3.56e-01 100.0% 26.5%
3858274 11.1.1.179 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 0.67 50.0 4.20e-01 98.3% 46.7%
3863267 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.67 49.0 4.18e-01 100.0% 48.0%
3230708 10.1.1.0 beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.67 47.0 3.37e-01 100.0% 24.9%
5062832 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.66 52.0 4.29e-01 100.0% 48.6%
3867717 11.1.1.179 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 0.65 50.0 4.29e-01 100.0% 52.6%
3393247 2492.1.1.1 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › dCMP_cyt_deam_1 0.65 54.0 4.06e-01 95.0% 43.5%
4461631 11.1.4.23 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › CarboxypepD_reg 0.65 49.0 4.21e-01 100.0% 51.6%
3993251 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.64 52.0 4.35e-01 100.0% 53.0%
3584610 10.1.1.0 beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.64 48.0 3.58e-01 100.0% 32.7%
5042638 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.64 55.0 4.36e-01 100.0% 48.7%
4147949 2004.1.1.198 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.63 52.0 3.16e-01 91.7% 94.4%
4936239 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.63 47.0 4.05e-01 98.3% 50.5%
3625061 10.1.1.10 beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › MAM 0.63 47.0 3.32e-01 100.0% 25.8%
3976564 10.12.1.0 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.63 48.0 3.54e-01 95.0% 32.7%
5059717 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.62 47.0 4.05e-01 98.3% 51.6%
3404658 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 50.0 4.56e-01 98.3% 66.3%
3572391 712.1.1.1 beta sandwiches › ENV polyprotein, receptor-binding domain › ENV polyprotein, receptor-binding domain › ENV polyprotein, receptor-binding domain › TLV_coat 0.62 53.0 3.75e-01 96.7% 100.0%
4950100 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 53.0 4.44e-01 100.0% 56.0%
4285304 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 49.0 4.13e-01 100.0% 50.5%
3412169 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 50.0 4.19e-01 100.0% 52.4%
3221959 3570.1.1.1 a+b two layers › FAM3 superfamily › FAM3 superfamily › FAM3 superfamily › ILEI 0.61 47.0 3.42e-01 98.3% 29.4%
4950864 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.61 44.0 3.63e-01 98.3% 41.8%
4928070 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 46.0 3.86e-01 98.3% 47.1%
185144 11.1.1.146 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF3244 0.60 46.0 3.99e-01 100.0% 53.2%
3581129 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.60 46.0 3.88e-01 100.0% 47.6%
5001345 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.60 53.0 3.31e-01 100.0% 18.4%
4015102 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 46.0 3.62e-01 98.3% 40.3%
5002181 11.1.1.1424 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF7490 0.59 50.0 3.77e-01 100.0% 40.0%
5036988 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 48.0 3.99e-01 100.0% 51.4%
4950754 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.59 44.0 3.70e-01 98.3% 47.1%
3496141 4004.1.1.4 beta sandwiches › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like › CERK_C 0.59 53.0 3.67e-01 100.0% 95.8%
3621262 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.58 42.0 4.24e-01 100.0% 76.7%
3472406 5.1.12.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › PERK and Ire1 luminal domains 0.58 50.0 3.18e-01 100.0% 19.3%
3586980 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 52.0 4.05e-01 100.0% 55.5%
3216926 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 52.0 3.86e-01 100.0% 41.3%
4111785 821.1.1.9 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › PF30054 0.58 51.0 4.36e-01 98.3% 62.1%
3909337 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.58 52.0 4.11e-01 100.0% 59.2%
5020888 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.58 47.0 3.76e-01 100.0% 45.0%
4515517 821.1.1.9 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › PF30054 0.57 51.0 4.48e-01 100.0% 66.7%
3344184 11.1.1.652 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ribophorin_II_3rd 0.57 44.0 3.33e-01 100.0% 34.5%
3501051 221.1.1.6 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.57 46.0 3.80e-01 93.3% 66.1%
3409951 223.2.1.20 a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_1 0.56 40.0 3.09e-01 76.7% 80.7%
5033320 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 50.0 4.09e-01 100.0% 54.5%
4065108 284.3.1.1 a+b two layers › FKBP-like › Colicin E3 immunity protein › Colicin E3 immunity protein › Cloacin_immun 0.56 50.0 4.45e-01 100.0% 92.9%
3192910 10.32.1.0 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.56 46.0 3.39e-01 100.0% 33.9%
3392258 11.1.1.536 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF1091 0.56 48.0 3.61e-01 100.0% 57.4%
5042719 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 47.0 3.87e-01 98.3% 54.8%
2579422 4326.1.1.1 a+b two layers › ERH-like › ERH-like › ERH-like › ER 0.55 45.0 4.01e-01 98.3% 70.2%
3404192 11.1.1.536 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF1091 0.52 45.0 3.48e-01 100.0% 63.6%
3789701 10.40.1.0 beta sandwiches › jelly-roll › PHR domain › PHR domain 0.52 42.0 3.20e-01 98.3% 36.1%
5033752 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 45.0 3.76e-01 98.3% 59.0%
3615747 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 37.0 2.62e-01 78.3% 51.0%
3249139 304.128.1.0 a+b two layers › Alpha-beta plaits › ferredoxin-like domain in periplasmic region of MacB › ferredoxin-like domain in periplasmic region of MacB 0.52 41.0 3.35e-01 88.3% 98.3%
4929163 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 45.0 3.47e-01 100.0% 42.9%
3233762 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 43.0 3.70e-01 98.3% 62.0%
3705774 223.2.1.42 a+b three layers › Profilin-like › profilin-like › profilin-like › Synaptobrevin 0.50 43.0 3.00e-01 100.0% 47.1%
3312745 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 43.0 3.24e-01 100.0% 57.5%