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LacPavin_0818_WC40_scaffold_120392_prodigal-single.1__X__X__00025

Bact-Vir

LacPavin_0818_WC40_scaffold_120392_prodigal-single.1__X__X__00025

Identity

Kingdom:
phage

Quality

92.1 mean pLDDT

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 6-86
PDB
Domain cluster: representative
CATH (48)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2l03A00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.67 40.0 4.15e-01 82.7% 64.9%
2n59A00 2.60.40.2420 Mainly Beta › Sandwich › Immunoglobulin-like › 0.65 46.0 4.31e-01 87.7% 59.4%
4njcA00 3.10.20.730 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNAP, epsilon subunit-like 0.65 44.0 4.89e-01 100.0% 96.7%
1hq6B00 3.50.20.10 Alpha Beta › 3-Layer(bba) Sandwich › Pyruvoyl-Dependent Histidine Decarboxylase; Chain B › Pyruvoyl-Dependent Histidine Decarboxylase, subunit B 0.64 51.0 3.79e-01 88.9% 34.2%
4aw7A01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.64 39.0 3.45e-01 88.9% 41.5%
6i7sG01 2.30.230.10 Mainly Beta › Roll › Lipovitellin-phosvitin complex; beta-sheet shell regions › Lipovitellin; beta-sheet shell regions, chain A 0.64 56.0 3.97e-01 98.8% 97.3%
5jtwA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 43.0 3.99e-01 86.4% 55.9%
1h2cA00 2.70.20.20 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Matrix protein VP40, N-terminal domain 0.61 49.0 4.31e-01 88.9% 96.8%
1r0uA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.61 48.0 4.02e-01 86.4% 95.1%
2zw2A00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.60 48.0 4.75e-01 86.4% 100.0%
3eipA00 3.10.50.20 Alpha Beta › Roll › Chitinase A; domain 3 › Cloacin immunity protein 0.60 46.0 4.55e-01 81.5% 97.6%
3ig5A02 3.30.590.50 Alpha Beta › 2-Layer Sandwich › Creatine Kinase; Chain A, domain 2 › 0.59 49.0 3.29e-01 95.1% 83.0%
2yjlA00 2.60.40.2990 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 42.0 3.82e-01 85.2% 56.5%
2qsdA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.58 39.0 4.14e-01 86.4% 82.1%
3tfzB00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.58 42.0 3.31e-01 76.5% 100.0%
3gtyX02 3.10.50.30 Alpha Beta › Roll › Chitinase A; domain 3 › Transcription elongation factor, GreA/GreB, C-terminal domain 0.57 46.0 4.57e-01 88.9% 85.7%
1vwxS01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.57 42.0 4.50e-01 86.4% 91.5%
3sd2A01 2.60.40.3080 Mainly Beta › Sandwich › Immunoglobulin-like › 0.56 35.0 3.57e-01 85.2% 64.9%
3o0lA00 2.60.40.3230 Mainly Beta › Sandwich › Immunoglobulin-like › 0.56 40.0 3.66e-01 86.4% 56.0%
1kbaA00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.56 33.0 3.58e-01 85.2% 69.7%
2vqeC02 3.30.1140.32 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Ribosomal protein S3, C-terminal domain 0.56 41.0 3.83e-01 86.4% 63.0%
7uzsX03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 45.0 3.97e-01 85.2% 61.7%
2bc4A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 36.0 3.28e-01 84.0% 49.5%
3jamD02 3.30.1140.32 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Ribosomal protein S3, C-terminal domain 0.56 43.0 3.66e-01 88.9% 50.4%
1ex0A03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 44.0 3.96e-01 87.7% 89.5%
1uw4A00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.55 42.0 4.07e-01 84.0% 96.7%
6cc0A01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.54 34.0 2.75e-01 71.6% 30.5%
3bgaA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 40.0 3.67e-01 81.5% 85.6%
1mkfA02 2.60.40.1340 Mainly Beta › Sandwich › Immunoglobulin-like › Chemokine-binding protein M3-like 0.53 42.0 3.37e-01 87.7% 50.0%
2xc8A00 2.60.40.2980 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 34.0 3.10e-01 95.1% 43.8%
3wnoA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 41.0 3.92e-01 87.7% 87.0%
4c47A01 2.60.40.1620 Mainly Beta › Sandwich › Immunoglobulin-like › Lipoprotein YajI-like 0.53 43.0 3.77e-01 88.9% 62.3%
7r3eB02 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.53 42.0 3.31e-01 85.2% 64.4%
5z1aA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 40.0 3.59e-01 84.0% 81.4%
2zaiA04 2.60.40.3030 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 45.0 3.92e-01 100.0% 67.4%
1kv3A03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 40.0 3.65e-01 86.4% 88.0%
1bh3A00 2.40.160.10 Mainly Beta › Beta Barrel › Porin › Porin 0.52 40.0 2.81e-01 85.2% 99.3%
2w7qB00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.52 45.0 3.57e-01 100.0% 83.9%
5dcaA08 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.52 38.0 3.54e-01 80.2% 87.3%
3e9tB00 2.60.40.2030 Mainly Beta › Sandwich › Immunoglobulin-like › CalX-beta domain 0.51 38.0 3.54e-01 84.0% 86.7%
1kshB00 2.70.50.40 Mainly Beta › Distorted Sandwich › Coagulation Factor XIII; Chain A, domain 1 › GMP phosphodiesterase, delta subunit 0.51 37.0 3.03e-01 79.0% 43.0%
4nx9A02 2.60.40.4390 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 38.0 3.45e-01 84.0% 94.2%
4a18X01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.50 38.0 3.87e-01 86.4% 82.3%
3fn9A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 39.0 3.54e-01 87.7% 81.7%
2df7A02 2.60.120.660 Mainly Beta › Sandwich › Jelly Rolls › icosahedral virus 0.50 40.0 3.45e-01 91.4% 72.1%
2jwyA01 2.60.40.1620 Mainly Beta › Sandwich › Immunoglobulin-like › Lipoprotein YajI-like 0.50 39.0 3.34e-01 85.2% 51.1%
1a8mA00 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.50 40.0 3.31e-01 88.9% 69.1%
4hscX04 2.60.40.1430 Mainly Beta › Sandwich › Immunoglobulin-like › Perfringolysin, domain 4 0.50 40.0 3.71e-01 90.1% 81.8%
ECOD (64)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4636309 5084.1.1.0 beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like 0.74 62.0 4.56e-01 92.6% 94.0%
3878947 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.71 48.0 4.72e-01 86.4% 65.9%
3543785 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.69 47.0 4.47e-01 86.4% 60.0%
3280008 3115.1.1.2 a+b two layers › GP2-like › RplX-like › RplX-like › DUF4288 0.67 59.0 5.71e-01 100.0% 90.0%
5069244 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.66 46.0 4.11e-01 87.7% 51.3%
5033281 304.100.1.1 a+b two layers › Alpha-beta plaits › PurS-like › PurS-like › PurS 0.66 49.0 5.35e-01 87.7% 98.5%
3508212 3115.1.1.6 a+b two layers › GP2-like › RplX-like › RplX-like › DUF4494 0.65 47.0 5.03e-01 95.1% 90.0%
4930609 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.64 45.0 3.73e-01 88.9% 42.1%
5060440 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.64 46.0 4.06e-01 85.2% 54.5%
3230558 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.64 46.0 4.36e-01 87.7% 63.0%
5010290 304.100.1.1 a+b two layers › Alpha-beta plaits › PurS-like › PurS-like › PurS 0.63 50.0 4.88e-01 86.4% 98.9%
4316087 230.2.1.0 a+b two layers › T-fold › Ribosomal protein S3-C › Ribosomal protein S3-C 0.62 47.0 4.13e-01 91.4% 55.0%
3259237 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.61 50.0 5.09e-01 90.1% 98.8%
185186 220.3.1.2 beta barrels › PH domain-like › first barrel domain in viral glycoproteins › first barrel domain in viral glycoproteins › Baculo_gp64 0.60 53.0 4.30e-01 98.8% 87.3%
2530507 220.3.1.3 beta barrels › PH domain-like › first barrel domain in viral glycoproteins › first barrel domain in viral glycoproteins › Glycoprot_B_PH1 0.60 53.0 3.87e-01 97.5% 82.5%
4976844 303.1.1.1 a+b four layers › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases › PvlArgDC 0.60 49.0 3.97e-01 100.0% 45.5%
3257853 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.59 49.0 3.36e-01 92.6% 69.2%
3927415 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 49.0 4.43e-01 87.7% 71.2%
3892842 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.58 42.0 4.55e-01 90.1% 95.4%
3874464 304.48.1.1 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.58 44.0 2.95e-01 95.1% 19.2%
4940890 230.2.1.1 a+b two layers › T-fold › Ribosomal protein S3-C › Ribosomal protein S3-C › Ribosomal_S3_C 0.58 43.0 3.76e-01 88.9% 52.0%
3408652 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 45.0 3.60e-01 87.7% 42.5%
3543786 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 39.0 3.73e-01 86.4% 60.0%
4668962 303.1.1.0 a+b four layers › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases 0.57 48.0 3.75e-01 96.3% 42.6%
5068930 303.1.1.1 a+b four layers › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases › PvlArgDC 0.57 43.0 3.49e-01 91.4% 40.9%
3237575 219.1.1.0 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.57 47.0 3.24e-01 90.1% 56.1%
5005564 11.1.1.1424 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF7490 0.57 39.0 3.61e-01 86.4% 57.0%
4873170 11.1.1.253 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › LIFR_D2 0.57 42.0 3.70e-01 87.7% 54.3%
3393078 11.10.1.11 beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like › TRAF_BTBD17 0.56 45.0 3.49e-01 85.2% 47.1%
3216873 11.10.1.6 beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like › MATH 0.56 45.0 3.82e-01 90.1% 53.8%
3220586 11.1.1.1023 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › MATH 0.56 45.0 4.41e-01 90.1% 78.9%
4927850 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 44.0 3.81e-01 84.0% 56.7%
3257660 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 46.0 3.94e-01 88.9% 62.4%
4427418 11.1.1.1229 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF27268 0.55 45.0 4.30e-01 87.7% 85.3%
3213637 11.10.1.6 beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like › MATH 0.55 45.0 3.89e-01 93.8% 56.2%
4084879 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.55 45.0 4.44e-01 100.0% 87.1%
5080817 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 43.0 3.68e-01 86.4% 52.6%
3969420 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 42.0 3.21e-01 85.2% 51.0%
3183475 11.2.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.54 42.0 3.40e-01 86.4% 99.4%
3742696 11.1.1.41 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_C 0.54 44.0 3.40e-01 87.7% 54.9%
223776 3115.4.1.1 a+b two layers › GP2-like › Uncharacterized conserved protein Il1583 › Uncharacterized conserved protein Il1583 › DUF1543 0.54 41.0 4.26e-01 98.8% 94.4%
3338688 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.54 39.0 4.26e-01 85.2% 98.5%
5076449 512.1.1.2 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd 0.54 46.0 3.43e-01 95.1% 64.3%
3927968 11.1.1.9 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_N 0.54 42.0 3.64e-01 88.9% 90.0%
3939070 11.1.1.1173 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF7757 0.54 40.0 3.51e-01 88.9% 52.0%
5050550 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.54 42.0 3.79e-01 87.7% 59.2%
4983416 11.1.1.103 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CARDB 0.54 42.0 3.84e-01 88.9% 85.2%
3251650 10.2.1.84 beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Seipin 0.54 42.0 3.34e-01 82.7% 58.1%
4120056 230.2.1.2 a+b two layers › T-fold › Ribosomal protein S3-C › Ribosomal protein S3-C › VAR1 0.53 42.0 3.74e-01 86.4% 65.5%
2741079 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.53 40.0 4.21e-01 86.4% 93.0%
3270524 11.10.1.5 beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like › MATH_2 0.53 42.0 3.56e-01 87.7% 51.9%
1503409 220.3.1.1 beta barrels › PH domain-like › first barrel domain in viral glycoproteins › first barrel domain in viral glycoproteins › Rhabdo_glycop 0.53 46.0 3.96e-01 98.8% 78.0%
4970081 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 40.0 3.55e-01 87.7% 56.5%
3164722 512.1.1.3 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st, PmbA_TldD_2nd 0.52 44.0 3.19e-01 93.8% 58.3%
3580968 10.40.1.1 beta sandwiches › jelly-roll › PHR domain › PHR domain › PHR 0.52 40.0 3.22e-01 85.2% 84.2%
3226049 11.10.1.6 beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like › MATH 0.51 42.0 3.50e-01 90.1% 53.1%
3270534 11.10.1.5 beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like › MATH_2 0.51 41.0 3.46e-01 86.4% 52.6%
3754279 11.1.1.239 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › MG3 0.51 41.0 3.60e-01 87.7% 58.3%
3420779 10.32.1.203 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Seipin 0.51 39.0 3.28e-01 87.7% 78.8%
3364648 207.1.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.51 40.0 2.86e-01 87.7% 39.3%
5043019 512.1.1.2 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd 0.51 43.0 3.22e-01 95.1% 62.8%
3941308 4004.1.1.0 beta sandwiches › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like 0.51 44.0 3.30e-01 98.8% 99.1%
3578775 11.1.1.41 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_C 0.51 40.0 3.36e-01 85.2% 65.5%
3056895 71.1.1.7 beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolA_2 0.51 43.0 3.39e-01 100.0% 81.1%