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LacPavin_0818_WC40_scaffold_30711_prodigal-single.1__X__X__00386

Bact-Vir

LacPavin_0818_WC40_scaffold_30711_prodigal-single.1__X__X__00386

Identity

Kingdom:
phage

Quality

76.8 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 2-83
PDB
Domain cluster: representative
CATH (46)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1n81A00 1.10.3030.10 Mainly Alpha › Orthogonal Bundle › Gametocyte protein Pfg27 › Gametocyte protein Pfg27 0.73 63.0 4.86e-01 100.0% 42.5%
7ccmB01 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.65 51.0 4.28e-01 92.7% 49.0%
1vw4L02 1.10.246.170 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.65 50.0 4.98e-01 93.9% 80.0%
3s6jE02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.64 43.0 4.61e-01 96.3% 82.6%
1sqgA01 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.64 45.0 3.80e-01 100.0% 43.3%
5dn6J00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.64 34.0 3.59e-01 87.8% 56.8%
1b10A00 1.10.790.10 Mainly Alpha › Orthogonal Bundle › Major Prion Protein › Prion/Doppel protein, beta-ribbon domain 0.63 52.0 4.84e-01 100.0% 73.1%
1iuqA01 1.10.1200.50 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Glycerol-3-phosphate acyltransferase, alpha helical bundle, N-terminal 0.62 39.0 4.03e-01 97.6% 67.1%
4ga4A02 3.40.1030.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2 › Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain 0.61 52.0 3.70e-01 95.1% 84.7%
2p1aB01 1.20.120.450 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › dinb family like domain 0.61 45.0 3.69e-01 78.0% 69.2%
2hszA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.61 44.0 4.57e-01 97.6% 84.0%
1io1A01 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.60 42.0 3.31e-01 72.0% 79.9%
1or7B01 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.60 44.0 4.27e-01 78.0% 72.3%
1s2xA00 1.20.190.30 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › CAG pathogenicity island protein, CagZ 0.59 47.0 3.64e-01 85.4% 66.7%
1t33A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.59 47.0 3.90e-01 90.2% 58.9%
4eadA02 3.40.1030.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2 › Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain 0.59 49.0 3.64e-01 95.1% 93.0%
1j5wA02 1.20.58.180 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Class II aaRS and biotin synthetases; domain 2 0.58 42.0 4.35e-01 84.1% 80.5%
4oe8C00 1.10.8.1170 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.58 39.0 3.83e-01 73.2% 64.4%
2oerA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 49.0 3.82e-01 93.9% 46.9%
2o7gA00 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.58 41.0 4.06e-01 75.6% 70.5%
2katA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.56 37.0 3.31e-01 87.8% 47.0%
1x3kA01 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.56 40.0 3.36e-01 75.6% 49.0%
1rp3A01 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.56 48.0 4.76e-01 98.8% 87.1%
3c2bA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 46.0 3.97e-01 98.8% 63.9%
1wwmA00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.55 50.0 3.86e-01 100.0% 47.2%
1g2rA00 3.30.1230.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Cytosolic Protein; Chain: A; › YlxR-like 0.54 43.0 4.18e-01 97.6% 75.5%
1uujA00 1.20.960.30 Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › 0.54 38.0 3.95e-01 100.0% 78.9%
3u3iA02 1.20.58.1110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 47.0 4.28e-01 93.9% 71.3%
4ioeA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.54 39.0 3.89e-01 75.6% 97.7%
4k7cA01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.54 46.0 3.04e-01 98.8% 24.4%
2ot4A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.53 38.0 3.45e-01 73.2% 57.0%
3umbA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.53 41.0 4.23e-01 86.6% 89.9%
2wauA02 1.20.58.830 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 39.0 3.46e-01 79.3% 83.6%
4bbrM00 1.10.472.170 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › 0.53 36.0 2.73e-01 78.0% 30.1%
2fu2A00 1.20.1440.50 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Ta0600-like 0.52 37.0 3.76e-01 76.8% 76.9%
4jgiA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.52 40.0 4.08e-01 87.8% 83.7%
2nt2A00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.52 42.0 3.57e-01 89.0% 86.6%
2dnxA00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 42.0 3.61e-01 87.8% 72.3%
3nbxX03 1.20.58.1510 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 45.0 4.26e-01 100.0% 94.1%
5x2bD00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 43.0 3.08e-01 97.6% 58.3%
1w07A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.51 36.0 2.91e-01 74.4% 91.7%
2reoA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 45.0 3.31e-01 96.3% 76.8%
3fy4C03 1.10.579.10 Mainly Alpha › Orthogonal Bundle › DNA Cyclobutane Dipyrimidine Photolyase, subunit A; domain 3 › DNA Cyclobutane Dipyrimidine Photolyase, subunit A, domain 3 0.51 41.0 3.20e-01 93.9% 70.3%
3tahA02 1.10.287.1770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.51 37.0 3.65e-01 79.3% 85.2%
5u1aL00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.50 40.0 3.18e-01 85.4% 75.3%
2chpA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.50 42.0 3.47e-01 92.7% 71.6%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3643885 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.84 68.0 7.26e-01 96.3% 100.0%
5027755 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.82 54.0 5.49e-01 87.8% 68.8%
4934293 4993.1.1.0 extended segments › Glu-tRNAGln amidotransferase C subunit › Glu-tRNAGln amidotransferase C subunit › Glu-tRNAGln amidotransferase C subunit 0.79 59.0 6.02e-01 100.0% 81.2%
4618102 101.11.1.1 alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.77 67.0 6.80e-01 98.8% 97.5%
3654210 129.1.1.0 alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like 0.74 62.0 6.48e-01 93.9% 100.0%
3587779 138.1.1.0 alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain 0.72 37.0 3.77e-01 72.0% 51.2%
3576492 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.71 60.0 5.83e-01 96.3% 84.4%
4985638 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.69 61.0 4.52e-01 100.0% 58.6%
4979261 5079.1.1.1 alpha duplicates or obligate multimers › Magnesium transporter MgtE membrane domain › Magnesium transporter MgtE membrane domain › Magnesium transporter MgtE membrane domain › MgtE 0.67 58.0 4.52e-01 98.8% 62.8%
3895604 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.66 39.0 3.14e-01 73.2% 30.6%
5021023 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.66 57.0 4.07e-01 98.8% 34.4%
3839206 101.11.1.1 alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.65 57.0 5.76e-01 100.0% 98.8%
4034108 1075.1.1.0 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain 0.65 53.0 4.29e-01 87.8% 72.3%
4013665 1075.1.2.0 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain 0.65 55.0 4.33e-01 95.1% 53.7%
3202970 1075.1.2.12 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › EMP70 0.64 54.0 4.34e-01 95.1% 55.3%
4941189 129.1.1.11 alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › ApbA_C 0.64 54.0 4.72e-01 97.6% 60.2%
3691095 3745.1.1.1 alpha bundles › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Na_Ca_ex 0.64 54.0 3.64e-01 100.0% 58.6%
3684672 621.1.1.3 alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Sey1_3HB 0.63 51.0 4.84e-01 90.2% 80.0%
3278774 142.1.1.3 alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2 0.62 42.0 3.94e-01 70.7% 59.0%
3354120 109.4.1.420 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR 0.62 39.0 3.02e-01 85.4% 28.6%
3481034 4009.1.1.0 alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins 0.61 39.0 4.03e-01 73.2% 67.5%
5000432 101.1.17.1 alpha arrays › HTH › HTH › FF domain › Ribosomal_S17e 0.60 51.0 4.99e-01 97.6% 87.8%
3260744 3745.1.1.1 alpha bundles › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Na_Ca_ex 0.60 52.0 3.43e-01 98.8% 60.8%
3235055 3065.1.1.2 alpha bundles › Fatty acid- and retinoid-binding proteins › Fatty acid- and retinoid-binding proteins › Fatty acid- and retinoid-binding proteins › Gp-FAR-1 0.59 49.0 4.04e-01 92.7% 61.3%
3185258 103.4.1.0 alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein 0.59 36.0 3.57e-01 70.7% 55.6%
3577412 5054.1.1.83 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Tcp11 0.59 49.0 3.88e-01 95.1% 50.0%
4034409 1075.1.2.0 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain 0.59 53.0 4.33e-01 98.8% 73.8%
4988301 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.58 52.0 4.25e-01 98.8% 95.3%
5058985 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.58 52.0 4.18e-01 100.0% 58.1%
4624818 621.1.1.0 alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain 0.58 47.0 4.61e-01 90.2% 88.9%
3884683 3922.1.1.0 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 0.57 32.0 2.81e-01 89.0% 37.5%
4062183 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.56 40.0 4.19e-01 73.2% 82.7%
3220199 174.1.1.1 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin 0.56 48.0 3.84e-01 91.5% 94.2%
3721462 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 0.56 47.0 3.64e-01 100.0% 91.6%
4928509 3962.1.1.1 alpha arrays › N-terminal helical domain in restriction-modification system methylation subunit-like › N-terminal helical domain in restriction-modification system methylation subunit › N-terminal helical domain in restriction-modification system methylation subunit › HsdM_N 0.56 50.0 4.28e-01 97.6% 76.4%
3665138 604.3.1.0 alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.55 41.0 3.81e-01 79.3% 71.4%
4953715 5054.1.1.6 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › TrkH 0.55 42.0 3.48e-01 80.5% 83.3%
3173484 633.21.1.17 alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › PFF1_TM 0.55 41.0 3.67e-01 78.0% 69.1%
3291425 191.1.1.44 alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_43 0.54 46.0 4.12e-01 96.3% 71.7%
4371240 632.7.1.55 alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › DUF2605 0.54 39.0 3.72e-01 74.4% 65.3%
3694634 1075.4.1.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane 0.54 46.0 3.14e-01 100.0% 44.7%
3330762 101.1.10.0 alpha arrays › HTH › HTH › Cyclin-like 0.54 38.0 3.37e-01 76.8% 51.3%
3988962 223.1.1.6 a+b three layers › Profilin-like › sensor domains › sensor domains › dCache_1 0.54 46.0 3.35e-01 97.6% 49.6%
3946910 3755.1.1.0 alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related 0.54 39.0 3.05e-01 78.0% 77.8%
3927942 109.1.1.0 alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C 0.53 45.0 3.79e-01 91.5% 75.6%
3480406 193.1.1.0 alpha bundles › CH domain-like › Calponin-homology domain-like › Calponin-homology domain-like 0.53 40.0 3.62e-01 79.3% 77.3%
3602354 1030.1.1.1 alpha duplicates or obligate multimers › Crispr-associated protein Csm2 › Crispr-associated protein Csm2 › Crispr-associated protein Csm2 › Csm2_III-A 0.53 45.0 4.01e-01 97.6% 98.3%
3934155 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.53 38.0 3.55e-01 75.6% 71.0%
3764999 4995.1.1.0 alpha arrays › Methionine synthase domain-like › Methionine synthase domain-like › Methionine synthase domain-like 0.53 38.0 3.85e-01 86.6% 77.5%
3167839 873.1.1.4 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › TRAPP 0.52 46.0 3.48e-01 98.8% 49.3%
3743047 604.5.1.28 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › TBCC_N 0.52 42.0 4.20e-01 89.0% 91.8%
4946897 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.51 44.0 3.45e-01 93.9% 75.9%