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BML_coassembly_scaffold_35_prodigal-single.1__X__X__00219

Bact-Vir

BML_coassembly_scaffold_35_prodigal-single.1__X__X__00219

Identity

Kingdom:
phage

Quality

83.0 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 12-63
PDB
Domain cluster: representative
CATH (61)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.84 72.0 5.71e-01 100.0% 48.0%
2etnB01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.84 73.0 6.49e-01 100.0% 68.4%
3layF00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.83 72.0 6.31e-01 100.0% 65.4%
3l1nA01 6.10.140.790 Special › Helix non-globular › Helix Hairpins › 0.82 65.0 6.57e-01 86.5% 90.2%
4dylA02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.82 73.0 5.94e-01 100.0% 55.3%
2fcwA00 1.20.81.10 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain 0.81 71.0 5.65e-01 100.0% 52.8%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.81 71.0 6.42e-01 100.0% 88.7%
2r9iA00 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.80 71.0 6.40e-01 100.0% 94.4%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.80 70.0 6.45e-01 100.0% 85.1%
3mq1A01 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.80 69.0 5.61e-01 96.2% 53.3%
1y6xA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.80 63.0 5.27e-01 92.3% 51.7%
1hqoA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.79 68.0 5.05e-01 96.2% 42.0%
3behB01 1.20.120.540 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels 0.79 68.0 5.21e-01 98.1% 42.7%
1fioA00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.78 68.0 4.64e-01 100.0% 27.9%
3nyjA00 1.20.120.770 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Amyloid precursor protein, E2 domain 0.78 67.0 4.61e-01 100.0% 28.2%
1wleA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.78 67.0 5.27e-01 100.0% 48.2%
1wa8A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.78 65.0 5.33e-01 96.2% 67.7%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.77 65.0 6.26e-01 98.1% 88.7%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.77 67.0 6.14e-01 100.0% 91.3%
1s35A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.77 65.0 5.33e-01 98.1% 87.1%
3sjqC00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.77 66.0 5.83e-01 100.0% 65.0%
2b5dX01 3.20.110.10 Alpha Beta › Alpha-Beta Barrel › 7-stranded beta/alpha barrel › Glycoside hydrolase 38, N terminal domain 0.77 59.0 3.47e-01 82.7% 21.0%
6r1nA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.77 66.0 5.35e-01 100.0% 50.5%
2efkA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.76 65.0 4.14e-01 98.1% 42.0%
7nc3F01 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.76 67.0 5.14e-01 98.1% 46.5%
2p4vA01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.76 66.0 5.89e-01 100.0% 73.7%
1lvfB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 64.0 5.21e-01 100.0% 50.0%
7ep1B01 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.75 58.0 3.72e-01 88.5% 18.2%
2xokP00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.75 63.0 5.71e-01 98.1% 73.0%
3lssA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.75 63.0 5.06e-01 100.0% 55.4%
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.75 64.0 5.22e-01 100.0% 55.9%
3tulB00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.74 64.0 4.83e-01 100.0% 39.1%
1vq8V00 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.74 59.0 5.56e-01 96.2% 72.3%
1ku9A02 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.74 63.0 5.96e-01 100.0% 81.2%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.74 63.0 5.57e-01 100.0% 66.2%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.73 61.0 5.95e-01 96.2% 88.1%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.72 53.0 5.21e-01 80.8% 100.0%
2kw6A00 6.10.140.1300 Special › Helix non-globular › Helix Hairpins › 0.72 61.0 5.74e-01 100.0% 80.0%
4gltA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.72 59.0 4.71e-01 100.0% 43.9%
2o8pA00 1.20.190.20 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › 14-3-3 domain 0.72 64.0 4.20e-01 100.0% 38.8%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.72 61.0 4.73e-01 100.0% 57.3%
3anwA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 61.0 4.85e-01 100.0% 67.3%
2lf0A01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.71 58.0 5.59e-01 100.0% 81.7%
1p49A02 1.10.287.550 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.71 59.0 5.74e-01 98.1% 88.1%
3lphC00 6.10.140.630 Special › Helix non-globular › Helix Hairpins › 0.71 58.0 5.64e-01 94.2% 82.8%
3m1cB01 3.30.390.170 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.70 50.0 3.96e-01 76.9% 55.0%
2qf9A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.70 57.0 4.12e-01 94.2% 35.3%
5fhiA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.70 56.0 4.17e-01 92.3% 38.1%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.69 57.0 5.48e-01 98.1% 82.0%
2e5yA02 1.20.5.440 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › ATP synthase delta/epsilon subunit, C-terminal domain 0.69 51.0 5.38e-01 84.6% 100.0%
1hr5A00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.68 53.0 5.46e-01 94.2% 97.9%
2a2cA03 1.20.1440.340 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.67 59.0 4.35e-01 100.0% 57.2%
4errB00 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 58.0 4.97e-01 98.1% 67.5%
2i7uA00 6.10.250.1010 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.66 54.0 5.21e-01 96.2% 87.1%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.66 53.0 5.37e-01 92.3% 96.1%
3fb2A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 53.0 4.42e-01 100.0% 83.8%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.64 52.0 4.77e-01 100.0% 87.8%
1m5iA00 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.63 53.0 4.36e-01 100.0% 80.0%
2ds2D01 1.10.110.10 Mainly Alpha › Orthogonal Bundle › Hydrophobic Seed Protein › Plant lipid-transfer and hydrophobic proteins 0.62 43.0 4.20e-01 73.1% 71.9%
2ndpA00 4.10.520.10 Few Secondary Structures › Irregular › HU Protein; Chain A › IHF-like DNA-binding proteins 0.61 43.0 3.49e-01 75.0% 53.5%
6tmfT00 1.10.60.20 Mainly Alpha › Orthogonal Bundle › Diphtheria Toxin Repressor; domain 2 › Ribosomal protein S17 0.53 48.0 4.49e-01 100.0% 85.9%
ECOD (47)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4174713 192.1.1.2 alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain › GreA_GreB_N 0.85 75.0 6.52e-01 100.0% 65.0%
4029516 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.83 70.0 4.74e-01 100.0% 27.2%
5055921 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.82 73.0 6.31e-01 100.0% 87.5%
3408094 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.81 71.0 5.27e-01 100.0% 38.5%
3390900 174.1.1.29 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › DUF4728 0.81 71.0 5.01e-01 100.0% 87.5%
4670545 3711.1.1.61 alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › CHD5 0.80 72.0 5.96e-01 100.0% 77.8%
315449 192.8.1.2 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › Hanta_nucleocap 0.80 70.0 6.22e-01 100.0% 92.1%
3789037 601.2.1.5 alpha bundles › Four-helical up-and-down bundle › Cytochromes › Cytochromes › Ctr 0.80 68.0 5.13e-01 96.2% 40.8%
3398473 632.1.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.80 69.0 5.41e-01 98.1% 49.1%
3889547 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.80 71.0 4.75e-01 100.0% 27.4%
3934925 604.3.1.0 alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.79 70.0 6.06e-01 100.0% 65.0%
4005523 3860.1.1.167 alpha bundles › Myosin VI lever arm › Myosin VI lever arm › Myosin VI lever arm › MscS_porin 0.79 69.0 4.86e-01 100.0% 71.9%
4129922 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.78 68.0 5.53e-01 100.0% 52.0%
4943086 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.78 63.0 5.80e-01 92.3% 68.6%
5057676 192.4.1.1 alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.78 68.0 6.05e-01 100.0% 88.0%
4028552 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.78 70.0 4.44e-01 100.0% 21.2%
149872 3291.1.1.1 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Snf7 0.78 67.0 5.89e-01 100.0% 78.5%
3625492 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.78 65.0 4.75e-01 100.0% 34.5%
3739409 3285.1.1.0 alpha duplicates or obligate multimers › Alix V domain › Alix V domain › Alix V domain 0.77 66.0 4.48e-01 100.0% 34.5%
3291377 605.1.1.4 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_3 0.77 67.0 5.51e-01 100.0% 53.7%
4156473 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.77 66.0 5.48e-01 100.0% 54.7%
3906631 4006.1.1.1 alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.76 66.0 5.22e-01 100.0% 47.3%
4136151 4006.1.1.1 alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.76 64.0 5.18e-01 94.2% 55.0%
3575542 601.2.1.5 alpha bundles › Four-helical up-and-down bundle › Cytochromes › Cytochromes › Ctr 0.76 64.0 5.09e-01 100.0% 45.6%
3386554 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.76 62.0 5.62e-01 96.2% 77.3%
5039854 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.75 63.0 5.69e-01 98.1% 78.7%
3757869 4006.1.1.0 alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain 0.75 66.0 5.42e-01 100.0% 60.0%
3693906 192.22.1.5 alpha bundles › Long alpha-hairpin › Ral binding domain of RLIP76 › Ral binding domain of RLIP76 › Tho2 0.75 63.0 5.29e-01 100.0% 73.7%
4964072 192.29.1.309 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › DUF7547 0.75 65.0 5.35e-01 100.0% 54.7%
5047384 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.74 62.0 5.87e-01 98.1% 81.5%
3855328 4006.1.1.1 alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.74 65.0 5.39e-01 100.0% 60.0%
3967290 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.74 62.0 5.70e-01 96.2% 71.4%
5018636 605.1.1.3 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_2 0.74 61.0 5.67e-01 98.1% 72.9%
3535346 2004.1.1.184 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_11 0.73 61.0 3.61e-01 98.1% 17.1%
4051951 605.2.1.0 alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 0.73 64.0 5.36e-01 100.0% 57.8%
4128596 3710.1.1.1 alpha bundles › Golgi to ER traffic protein 1 cytosolic domain › Golgi to ER traffic protein 1 cytosolic domain › Golgi to ER traffic protein 1 cytosolic domain › CHD5 0.73 60.0 5.64e-01 100.0% 75.4%
3971315 4006.1.1.1 alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.73 62.0 5.00e-01 100.0% 48.6%
3618651 3291.1.1.0 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.73 63.0 5.40e-01 100.0% 81.2%
3244591 3684.1.1.0 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.72 60.0 4.31e-01 96.2% 31.9%
3926919 3710.1.1.0 alpha bundles › Golgi to ER traffic protein 1 cytosolic domain › Golgi to ER traffic protein 1 cytosolic domain › Golgi to ER traffic protein 1 cytosolic domain 0.71 61.0 5.89e-01 100.0% 86.7%
4982959 3922.1.1.357 alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Auto_anti-p27 0.71 59.0 4.87e-01 100.0% 51.0%
4147979 4006.1.1.1 alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.70 57.0 4.69e-01 94.2% 49.0%
5045370 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.69 58.0 5.62e-01 100.0% 85.0%
3460130 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.68 54.0 4.86e-01 96.2% 63.7%
3989824 192.1.1.0 alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain 0.68 55.0 5.59e-01 92.3% 96.0%
3749862 605.1.1.178 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › TMEM215 0.66 53.0 5.18e-01 100.0% 83.3%
3165232 1078.1.1.0 extended segments › Bd-type quinol oxidase transmembrane helix subunit › Bd-type quinol oxidase transmembrane helix subunit › Bd-type quinol oxidase transmembrane helix subunit 0.62 47.0 4.98e-01 84.6% 93.3%