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LacPavin_0818_WC40_scaffold_354720_prodigal-single.1__X__X__00493

Bact-Vir

LacPavin_0818_WC40_scaffold_354720_prodigal-single.1__X__X__00493

Identity

Kingdom:
phage

Quality

71.2 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 23-81
PDB
Domain cluster: representative
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4id0A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.83 52.0 4.11e-01 78.0% 33.9%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.81 67.0 5.22e-01 91.5% 44.4%
2bskE00 1.10.287.810 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Mitochondrial import inner membrane translocase subunit tim13 like domains 0.77 64.0 6.28e-01 91.5% 93.7%
3cjhI00 1.10.287.810 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Mitochondrial import inner membrane translocase subunit tim13 like domains 0.77 63.0 6.56e-01 91.5% 100.0%
5zw7A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.77 58.0 4.21e-01 79.7% 34.9%
3nvoB02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.77 57.0 4.55e-01 86.4% 40.5%
3behB01 1.20.120.540 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels 0.76 52.0 4.11e-01 79.7% 35.9%
2uxwA01 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.76 58.0 3.99e-01 84.7% 25.8%
2aj6A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.76 52.0 4.03e-01 71.2% 38.3%
2yevC00 6.10.280.110 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.74 56.0 5.48e-01 79.7% 74.6%
1vp7A00 1.10.287.1040 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Exonuclease VII, small subunit 0.73 62.0 5.90e-01 91.5% 77.9%
3icxA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.73 52.0 4.85e-01 79.7% 60.0%
3r84B00 6.10.280.160 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator of RNA polymerase II transcription subunit 22 0.73 59.0 5.26e-01 86.4% 67.5%
3tixA02 6.10.140.1690 Special › Helix non-globular › Helix Hairpins › 0.72 54.0 4.87e-01 88.1% 59.5%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.71 50.0 4.97e-01 81.4% 70.5%
7wboA01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.70 52.0 3.64e-01 83.1% 25.6%
1dmhA00 2.60.130.10 Mainly Beta › Sandwich › Protocatechuate 3,4-Dioxygenase, subunit A › Aromatic compound dioxygenase 0.70 49.0 3.07e-01 81.4% 13.9%
4fzsA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.70 58.0 3.91e-01 91.5% 25.4%
4jndA02 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.70 53.0 3.36e-01 81.4% 28.1%
3vm9A02 6.10.140.2110 Special › Helix non-globular › Helix Hairpins › 0.69 54.0 5.52e-01 83.1% 87.7%
1tjlA00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.69 64.0 4.70e-01 100.0% 41.4%
5x56B00 1.20.58.810 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Photosystem II Pbs27 0.68 47.0 3.88e-01 72.9% 87.6%
2bnlC00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.67 46.0 3.55e-01 98.3% 32.1%
4o5fA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.65 55.0 4.32e-01 94.9% 74.8%
3mzvA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.65 58.0 3.65e-01 100.0% 40.1%
2gf4A00 1.20.1270.110 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Uncharacterised protein family UPF0058 0.65 56.0 4.86e-01 94.9% 89.8%
2wbiB03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.64 55.0 3.99e-01 93.2% 35.4%
3d85C00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.64 51.0 3.92e-01 88.1% 89.5%
4dwlA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.64 46.0 3.80e-01 78.0% 43.5%
4gf0A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.63 45.0 3.58e-01 78.0% 38.9%
3a06B03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.63 45.0 3.91e-01 74.6% 86.4%
1b5lA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.63 53.0 3.89e-01 91.5% 46.1%
2wiyA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.62 53.0 3.23e-01 98.3% 26.6%
5nl6A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 53.0 4.31e-01 96.6% 51.9%
4uqfG01 1.10.286.10 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › GTP cyclohydrolase I, N-terminal domain 0.61 46.0 4.79e-01 89.8% 96.2%
1a3qA01 2.60.40.340 Mainly Beta › Sandwich › Immunoglobulin-like › Rel homology domain (RHD), DNA-binding domain 0.59 44.0 3.23e-01 84.7% 38.5%
3vkgA02 1.20.140.100 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Dynein motor heavy chain, linker domain, N-terminal subdomain 0.59 51.0 3.86e-01 98.3% 62.6%
3ic9A02 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.59 48.0 4.61e-01 93.2% 80.0%
5u56A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.59 41.0 3.47e-01 76.3% 42.0%
6j09A02 3.10.20.310 Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac 0.59 41.0 3.77e-01 74.6% 59.0%
1wgwA00 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.57 40.0 3.46e-01 79.7% 44.4%
4bzaA01 3.10.20.310 Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac 0.56 40.0 3.83e-01 76.3% 72.1%
1jqdA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.54 37.0 2.44e-01 72.9% 16.8%
3ermB00 1.10.10.710 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › PSPTO_1197 like 0.54 36.0 3.62e-01 72.9% 67.2%
3i2fA02 1.10.3020.10 Mainly Alpha › Orthogonal Bundle › alpha-amino acid ester hydrolase ( Helical cap domain) › alpha-amino acid ester hydrolase ( Helical cap domain) 0.52 40.0 3.45e-01 84.7% 76.8%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4978274 4163.1.1.0 alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like 0.89 65.0 5.06e-01 86.4% 39.1%
4249161 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 0.86 62.0 5.95e-01 83.1% 67.7%
3880178 192.8.1.92 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › CUPID 0.86 59.0 5.23e-01 83.1% 52.5%
3866897 148.1.1.12 alpha arrays › Histone-like › Histone-related › Histone › Bromo_TP 0.85 76.0 6.37e-01 96.6% 60.0%
3766956 622.4.1.22 alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › FAM186A-B_N 0.85 62.0 4.76e-01 84.7% 37.5%
3244102 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.82 65.0 5.13e-01 83.1% 58.2%
3168103 604.6.1.0 alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.81 65.0 5.43e-01 84.7% 62.1%
5000698 604.38.1.0 alpha bundles › Spectrin repeat-like › Legionella effector SdeA 3-helical bundle › Legionella effector SdeA 3-helical bundle 0.81 55.0 4.40e-01 76.3% 39.0%
3707811 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.80 57.0 3.40e-01 74.6% 11.7%
3503329 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.80 57.0 4.84e-01 84.7% 47.4%
4045132 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.79 64.0 5.05e-01 91.5% 45.5%
3474517 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.79 60.0 3.38e-01 93.2% 7.9%
3286126 633.6.1.1 alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA_dh_1 0.79 60.0 4.23e-01 79.7% 33.1%
4639996 150.7.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PE › PE › PE 0.78 64.0 5.44e-01 86.4% 76.7%
3832382 5069.1.3.60 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › OST3_OST6 0.78 57.0 4.41e-01 89.8% 37.5%
223656 633.6.1.1 alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA_dh_1 0.76 57.0 4.12e-01 79.7% 32.9%
4042824 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.76 61.0 5.43e-01 91.5% 62.5%
5038847 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 0.76 56.0 5.29e-01 86.4% 65.7%
5059555 2004.1.1.87 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.76 59.0 3.57e-01 84.7% 13.6%
3526234 206.1.1.14 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › ABC1 0.75 68.0 4.08e-01 100.0% 72.2%
4317199 603.5.1.1 alpha bundles › STAT-like › FlgN-like › FlgN-like › FlgN 0.75 56.0 4.34e-01 81.4% 37.6%
3739454 192.5.1.38 alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat › NEDD4_Bsd2 0.75 58.0 4.75e-01 89.8% 46.7%
4029168 4984.1.1.0 alpha bundles › Duffy-binding-like domain, C-terminal subdomain › Duffy-binding-like domain, C-terminal subdomain › Duffy-binding-like domain, C-terminal subdomain 0.75 54.0 4.14e-01 83.1% 34.6%
4962880 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.74 61.0 4.00e-01 89.8% 23.1%
3962600 633.6.1.0 alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like 0.73 57.0 4.20e-01 89.8% 33.1%
4166693 7013.1.1.1 alpha bundles › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Efg1 0.73 61.0 4.17e-01 91.5% 28.1%
3739377 4177.1.1.1 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › FCH 0.72 63.0 3.93e-01 94.9% 20.0%
2447204 2006.1.4.1 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › XPG_N,XPG_I 0.71 50.0 4.40e-01 81.4% 50.6%
4226115 5050.1.1.0 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.71 62.0 4.07e-01 98.3% 78.8%
4319390 633.6.1.1 alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA_dh_1 0.70 55.0 4.06e-01 84.7% 65.8%
3509201 1008.1.1.1 alpha bundles › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › BRCC36_C 0.70 55.0 4.90e-01 86.4% 62.4%
3734144 109.3.1.0 alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.70 64.0 4.64e-01 100.0% 81.9%
3819233 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 0.69 55.0 4.37e-01 84.7% 48.7%
5060201 4163.1.1.1 alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.69 59.0 4.57e-01 96.6% 44.0%
3285283 101.1.9.0 alpha arrays › HTH › HTH › Putative DNA-binding domain 0.69 62.0 4.48e-01 100.0% 87.9%
3961960 191.1.1.0 alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain 0.68 46.0 3.96e-01 78.0% 45.6%
3477290 1.1.5.9 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Putative_PNPOx,PNP_phzG_C 0.67 44.0 2.93e-01 72.9% 17.0%
5041499 633.6.1.1 alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA_dh_1 0.67 55.0 4.09e-01 89.8% 66.7%
4989750 633.6.1.1 alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA_dh_1 0.66 59.0 4.24e-01 96.6% 36.8%
3557037 109.4.1.893 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › UTP6_C 0.66 44.0 3.25e-01 78.0% 25.6%
3932688 633.6.1.1 alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA_dh_1 0.65 57.0 4.16e-01 93.2% 38.6%
4988487 547.1.1.1 alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.65 52.0 4.80e-01 94.9% 68.4%
3697292 633.24.1.0 alpha bundles › Bromodomain-like › RABEX-5 helical domain › RABEX-5 helical domain 0.64 52.0 4.43e-01 88.1% 58.9%
4535381 101.1.2.603 alpha arrays › HTH › HTH › winged helix domain › RNA_pol_Rpc82, HTH_9 0.63 52.0 3.51e-01 98.3% 24.0%
4978734 5054.1.1.0 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.63 54.0 3.83e-01 93.2% 42.9%
3398025 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.63 45.0 3.86e-01 78.0% 53.0%
4927613 2004.1.1.42 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.59 49.0 2.96e-01 100.0% 47.5%
3244254 101.1.8.23 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › DUF4473 0.59 44.0 3.96e-01 79.7% 72.5%
3210910 102.1.1.62 alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › DUF4473 0.57 42.0 3.81e-01 79.7% 73.8%
4992444 2484.1.1.330 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF460 0.54 44.0 3.21e-01 88.1% 44.8%