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NC_031056.1__YP_009285424.1__Blue_112__00112

Bact-Vir

NC_031056.1__YP_009285424.1__Blue_112__00112

Identity

Accession:
NC_031056 ↗
Kingdom:
phage

Quality

90.5 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 3-53
PDB
Domain cluster: representative
CATH (56)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3d5lA02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.81 65.0 6.78e-01 96.1% 100.0%
3iuoA00 1.10.10.1390 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › ATP-dependent DNA helicase RecQ 0.79 64.0 4.99e-01 98.0% 42.2%
3g0oA02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.76 68.0 5.12e-01 100.0% 89.3%
3dfgA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.76 61.0 6.25e-01 94.1% 95.8%
4fcyA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.76 63.0 5.55e-01 98.0% 62.8%
2dk8A01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.74 64.0 5.94e-01 100.0% 76.9%
1ug3A02 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.74 61.0 4.65e-01 96.1% 40.6%
5dikA00 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.74 60.0 4.73e-01 94.1% 94.6%
1i36A02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.73 64.0 5.17e-01 100.0% 92.9%
1qdmA03 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.71 60.0 5.32e-01 100.0% 68.8%
2jaeA03 1.20.1440.240 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.69 46.0 3.69e-01 76.5% 34.7%
1ci4A00 1.10.150.40 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Barrier-to-autointegration factor, BAF 0.69 58.0 4.95e-01 98.0% 90.9%
5xsoA02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.68 50.0 4.50e-01 90.2% 55.3%
5f64A02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.68 56.0 4.96e-01 92.2% 68.0%
3s63A00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.67 57.0 4.84e-01 98.0% 83.0%
2y39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.67 46.0 3.58e-01 72.5% 73.6%
5c8aA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.67 55.0 4.85e-01 94.1% 79.5%
1w0bA01 1.20.58.420 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › AHSP 0.66 56.0 4.74e-01 100.0% 83.7%
1zzgA01 3.40.50.10490 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glucose-6-phosphate isomerase like protein; domain 1 0.64 52.0 3.48e-01 100.0% 70.7%
3beyD00 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.64 51.0 4.31e-01 98.0% 50.0%
1wh4A01 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.63 46.0 3.87e-01 80.4% 83.0%
1urfA00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.63 44.0 3.75e-01 72.5% 87.7%
2ouwB00 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.63 51.0 3.90e-01 96.1% 37.5%
4kjmA02 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 0.63 39.0 3.88e-01 76.5% 58.2%
2zxqA06 1.20.1270.70 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle 0.62 41.0 3.84e-01 76.5% 54.5%
3b0pA02 1.20.120.1460 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.61 49.0 4.38e-01 90.2% 74.7%
1wp7A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.61 45.0 4.16e-01 78.4% 65.6%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.59 43.0 3.61e-01 82.4% 45.5%
3no6A00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.58 47.0 3.18e-01 98.0% 38.7%
2l37A00 6.10.250.890 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.58 39.0 4.06e-01 70.6% 86.0%
4l8jA04 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.58 42.0 4.07e-01 82.4% 67.8%
1bhaA00 1.10.287.170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 44.0 4.03e-01 84.3% 62.7%
2ycdA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.58 48.0 3.78e-01 98.0% 66.7%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.58 42.0 4.02e-01 82.4% 66.7%
3ph0C00 1.25.40.1040 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.57 47.0 4.72e-01 100.0% 88.7%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.57 45.0 3.85e-01 84.3% 100.0%
3sk9A00 1.10.3210.30 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › 0.57 45.0 2.98e-01 90.2% 21.7%
7ymiZ01 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.57 44.0 4.28e-01 84.3% 96.6%
4malA00 1.20.58.2200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 48.0 4.63e-01 100.0% 83.1%
4ezeB00 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.56 46.0 2.96e-01 100.0% 64.0%
2ynqB00 1.25.40.680 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Type VII secretion system EssB, C-terminal-like domain 0.56 47.0 3.41e-01 96.1% 45.0%
3c4wB01 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.56 45.0 3.04e-01 90.2% 35.0%
4gf0A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.55 45.0 3.60e-01 94.1% 47.8%
3ddeB00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.55 47.0 3.11e-01 100.0% 31.6%
3uumA00 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 43.0 3.29e-01 86.3% 71.3%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.55 38.0 3.58e-01 78.4% 60.7%
2riqA01 1.10.20.130 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › 0.54 39.0 3.66e-01 78.4% 60.6%
3akjA02 1.10.1070.20 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › 0.54 42.0 2.86e-01 88.2% 25.9%
2r5sA02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.53 45.0 3.81e-01 96.1% 58.0%
1r4aE00 1.10.220.60 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › GRIP domain 0.53 35.0 3.60e-01 72.5% 74.5%
2jvnA00 3.90.640.80 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › 0.53 46.0 3.43e-01 96.1% 95.2%
2p58C00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.53 42.0 3.37e-01 94.1% 60.7%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.53 45.0 4.01e-01 96.1% 85.1%
8d8lN01 1.10.287.1480 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.52 42.0 3.54e-01 90.2% 66.3%
3hx3A01 1.10.8.20 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › N-terminal domain of phosphatidylinositol transfer protein sec14p 0.51 41.0 3.73e-01 86.3% 89.6%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.51 41.0 3.99e-01 88.2% 89.7%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5042980 101.35.1.41 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › PF26555 0.91 82.0 8.30e-01 98.0% 100.0%
4996152 101.35.1.0 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.87 80.0 6.51e-01 100.0% 56.7%
4995679 101.35.1.0 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.87 74.0 7.51e-01 96.1% 96.0%
5030241 101.35.1.0 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.86 76.0 7.19e-01 100.0% 83.3%
4363995 195.1.1.1 alpha complex topology › NusB-like › NusB-like › NusB-like › NusB 0.84 74.0 5.32e-01 98.0% 36.4%
4878487 129.1.1.16 alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › NAD_binding_11 0.83 72.0 5.32e-01 94.1% 89.3%
4392311 101.35.1.1 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH2 0.83 66.0 6.94e-01 90.2% 100.0%
4609007 101.1.17.0 alpha arrays › HTH › HTH › FF domain 0.80 69.0 7.05e-01 100.0% 98.0%
2325850 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.80 65.0 6.57e-01 100.0% 92.2%
3955500 101.1.2.655 alpha arrays › HTH › HTH › winged helix domain › DUF732 0.79 71.0 6.14e-01 100.0% 70.5%
3286921 129.1.1.16 alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › NAD_binding_11 0.79 70.0 5.23e-01 100.0% 88.8%
5004578 101.1.1.545 alpha arrays › HTH › HTH › Three-helical HTH › DUF1699 0.79 68.0 6.49e-01 100.0% 83.3%
5013347 101.1.2.946 alpha arrays › HTH › HTH › winged helix domain › PF26555 0.79 63.0 6.56e-01 88.2% 100.0%
5003561 101.1.1.545 alpha arrays › HTH › HTH › Three-helical HTH › DUF1699 0.79 61.0 6.35e-01 88.2% 95.6%
3257722 198.1.1.3 alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_1 0.78 68.0 5.75e-01 100.0% 70.6%
3954237 532.2.1.16 alpha arrays › Type III secretion system domain-like › Type III secretion system domains › Type III secretion system domains › DUF732 0.77 67.0 5.84e-01 100.0% 65.0%
3177674 1075.1.1.20 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › ABC2_membrane+PDR_CDR 0.77 67.0 4.15e-01 100.0% 36.6%
3417768 129.1.1.16 alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › NAD_binding_11 0.77 67.0 4.96e-01 98.0% 83.8%
3255955 198.1.1.2 alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_2,SapB_1 0.77 67.0 5.69e-01 100.0% 69.4%
5048987 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.76 66.0 6.51e-01 98.0% 94.4%
3915663 632.22.1.9 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › Ciart 0.73 49.0 4.18e-01 76.5% 44.9%
3280977 129.1.1.16 alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › NAD_binding_11 0.73 62.0 4.76e-01 100.0% 88.8%
3603105 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.72 59.0 5.26e-01 98.0% 62.7%
3244407 101.35.1.0 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.71 62.0 5.90e-01 100.0% 88.3%
3602903 101.1.3.0 alpha arrays › HTH › HTH › tetra-helical, LuxR-like 0.71 58.0 5.39e-01 98.0% 72.3%
3777242 3919.1.1.2 alpha duplicates or obligate multimers › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › COMM_HN 0.71 59.0 4.61e-01 100.0% 43.3%
3691750 376.1.1.8 few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › U-box 0.71 47.0 3.31e-01 70.6% 23.5%
4375034 7000.1.1.0 alpha arrays › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS 0.68 57.0 5.60e-01 94.1% 96.4%
3707222 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.66 53.0 5.25e-01 100.0% 90.9%
3606827 150.5.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.65 42.0 4.26e-01 82.4% 68.0%
3597099 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.64 48.0 3.42e-01 80.4% 100.0%
4287137 3455.1.1.0 alpha arrays › WY-domain in RXLR effectors › WY-domain in RXLR effectors › WY-domain in RXLR effectors 0.63 52.0 4.50e-01 100.0% 72.2%
1002194 192.23.1.1 alpha bundles › Long alpha-hairpin › DUF683 › DUF683 › Rop-like 0.62 44.0 3.94e-01 78.4% 53.5%
5056476 5058.1.1.0 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.62 45.0 3.93e-01 76.5% 54.7%
4995305 604.5.1.2 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU 0.62 49.0 4.07e-01 88.2% 80.0%
3974231 5086.1.1.84 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_MFP_RND 0.61 44.0 3.98e-01 76.5% 97.1%
3579249 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.61 49.0 4.37e-01 100.0% 81.2%
3982740 5086.1.1.190 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › OEP 0.61 44.0 2.90e-01 76.5% 20.0%
4167208 604.15.1.0 alpha bundles › Spectrin repeat-like › Efb C-domain-like › Efb C-domain-like 0.60 46.0 4.42e-01 86.3% 75.0%
4243573 184.1.1.1 alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Glycos_trans_3N 0.59 48.0 4.50e-01 92.2% 78.5%
3482892 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.59 44.0 2.85e-01 100.0% 15.1%
4362754 5086.1.1.86 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_YBHG 0.59 43.0 3.25e-01 78.4% 34.2%
5080738 192.15.1.47 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › GvpK 0.58 42.0 3.57e-01 76.5% 45.9%
3617789 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.58 47.0 3.17e-01 92.2% 22.4%
4192699 603.5.1.1 alpha bundles › STAT-like › FlgN-like › FlgN-like › FlgN 0.57 51.0 3.80e-01 100.0% 69.2%
4379330 632.2.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.57 43.0 4.17e-01 86.3% 75.0%
5018716 150.5.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.57 45.0 4.01e-01 84.3% 70.0%
5048862 2004.1.1.5 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.56 45.0 2.72e-01 92.2% 12.3%
3987006 5086.1.1.93 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_EMRA 0.56 46.0 3.32e-01 90.2% 59.3%
3166260 1.1.7.123 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › PF25885 0.56 46.0 3.37e-01 90.2% 62.3%
4010479 325.1.7.48 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › PF25885 0.55 46.0 3.37e-01 90.2% 63.8%
3725377 192.15.1.44 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › DUF6604 0.55 44.0 3.80e-01 94.1% 88.9%
1346823 109.4.1.210 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_19 0.54 46.0 4.26e-01 96.1% 92.2%
5047389 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 41.0 3.22e-01 98.0% 61.5%
5043437 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.51 45.0 3.56e-01 100.0% 75.2%