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LacPavin_0818_WC50_scaffold_3810_prodigal-single.1__X__X__00087

Bact-Vir

LacPavin_0818_WC50_scaffold_3810_prodigal-single.1__X__X__00087

Identity

Kingdom:
phage

Quality

87.7 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 5-63
PDB
Domain cluster: representative
CATH (44)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5cw3C01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.68 60.0 4.51e-01 100.0% 40.1%
1jx4A04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.68 58.0 4.99e-01 100.0% 62.2%
4ekuA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.67 50.0 3.91e-01 100.0% 39.3%
3o2sB01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.67 51.0 3.93e-01 83.1% 69.4%
5hw3A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.65 50.0 3.24e-01 83.1% 18.2%
1e25A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.64 49.0 3.17e-01 83.1% 18.0%
4ewtA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 53.0 4.33e-01 94.9% 97.4%
1y6kR01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 46.0 3.97e-01 100.0% 47.1%
6izcA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.63 49.0 3.20e-01 84.7% 19.4%
4lugB00 3.90.80.10 Alpha Beta › Alpha-Beta Complex › Inorganic Pyrophosphatase › Inorganic pyrophosphatase 0.63 52.0 3.89e-01 100.0% 39.2%
2j7vB01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.62 47.0 3.06e-01 83.1% 18.7%
4pxdA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 50.0 4.13e-01 93.2% 94.8%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.61 51.0 4.32e-01 100.0% 56.9%
3qhyA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.61 46.0 3.03e-01 83.1% 20.2%
2i44B00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.61 49.0 3.16e-01 91.5% 30.4%
3q8pB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.61 51.0 4.30e-01 100.0% 63.0%
5kycB02 2.20.210.10 Mainly Beta › Single Sheet › ubp-family deubiquitinating enzyme fold › ubp-family deubiquitinating enzyme superfamily 0.60 47.0 4.88e-01 100.0% 94.3%
3ir9A02 3.30.1330.30 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Ribosomal protein L30/S12 0.60 45.0 3.64e-01 100.0% 40.8%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.59 44.0 4.26e-01 100.0% 71.2%
1bquA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 47.0 3.96e-01 100.0% 50.9%
1es6A02 2.60.510.10 Mainly Beta › Sandwich › EV matrix protein fold › EV matrix protein 0.58 48.0 4.23e-01 100.0% 98.0%
3ihlB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.58 45.0 3.04e-01 84.7% 87.3%
4pofA03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.58 43.0 4.58e-01 100.0% 98.0%
3snoA01 3.30.470.10 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › Aminotransferase class 4, branched-chain amino acid transferase, N-terminal domain 0.57 42.0 3.46e-01 83.1% 85.1%
1ltlA03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.57 41.0 4.36e-01 100.0% 95.9%
5u3fB01 3.30.470.10 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › Aminotransferase class 4, branched-chain amino acid transferase, N-terminal domain 0.57 45.0 3.51e-01 89.8% 60.7%
1kvkA01 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.57 47.0 3.24e-01 96.6% 88.3%
2k2dA00 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.56 36.0 3.87e-01 94.9% 80.9%
1ycoA00 3.40.718.10 Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase 0.56 45.0 2.99e-01 94.9% 19.6%
5t89Y06 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 44.0 3.90e-01 100.0% 58.7%
7eehA01 2.60.120.620 Mainly Beta › Sandwich › Jelly Rolls › q2cbj1_9rhob like domain 0.55 41.0 2.69e-01 78.0% 18.1%
2r7rA07 3.30.230.140 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.55 49.0 3.89e-01 100.0% 78.3%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.55 47.0 3.48e-01 100.0% 47.9%
3axsA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.55 48.0 3.02e-01 100.0% 61.8%
3pv7A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 44.0 3.86e-01 100.0% 59.6%
4me3A03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.53 42.0 4.30e-01 100.0% 98.2%
6nhsA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.53 42.0 2.82e-01 89.8% 23.0%
6iouA02 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.52 37.0 3.08e-01 76.3% 93.8%
3webA00 2.60.40.770 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 43.0 3.44e-01 100.0% 51.5%
1vypX00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.51 41.0 2.65e-01 96.6% 36.7%
6hj2A00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.51 46.0 2.95e-01 100.0% 55.5%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.51 44.0 3.83e-01 98.3% 91.3%
4e6xB00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.50 40.0 2.63e-01 91.5% 55.5%
1u8sA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.50 42.0 3.82e-01 100.0% 94.2%
ECOD (56)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4970537 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 45.0 5.33e-01 96.6% 97.5%
3548433 2492.1.1.2 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.70 62.0 4.31e-01 100.0% 46.8%
4642171 2492.1.1.0 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.69 61.0 4.20e-01 100.0% 30.5%
154683 302.1.1.1 a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.69 60.0 5.03e-01 100.0% 60.8%
3378032 2492.1.1.2 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.69 61.0 4.23e-01 100.0% 35.4%
3223796 304.112.1.15 a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain › HRDE1_NRDE3_N 0.68 52.0 4.11e-01 83.1% 56.0%
3404684 10.12.1.84 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › VKGC_lumenal_dom 0.68 57.0 4.01e-01 100.0% 31.4%
4567075 10.12.1.84 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › VKGC_lumenal_dom 0.67 57.0 3.70e-01 100.0% 22.1%
2099738 304.139.1.4 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › Cas_CT1975 0.66 54.0 3.33e-01 91.5% 42.8%
5001656 304.48.1.0 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.65 56.0 3.96e-01 94.9% 55.0%
4032885 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.65 55.0 4.45e-01 94.9% 96.5%
3404185 304.28.1.0 a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.64 54.0 3.79e-01 98.3% 96.6%
5011570 302.1.1.0 a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain 0.64 55.0 4.51e-01 100.0% 49.6%
3338688 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.64 56.0 5.44e-01 100.0% 93.8%
4034375 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.64 54.0 4.36e-01 94.9% 96.5%
3739712 223.2.1.10 a+b three layers › Profilin-like › profilin-like › profilin-like › Gtr1_RagA 0.64 44.0 3.47e-01 83.1% 33.1%
4020546 302.1.1.1 a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.63 53.0 4.27e-01 100.0% 47.7%
4995774 375.1.1.185 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Zn_ribbon_8 0.63 41.0 4.75e-01 91.5% 97.5%
4091845 304.7.1.0 a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.63 48.0 3.89e-01 84.7% 51.7%
4929321 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.63 42.0 4.26e-01 100.0% 68.3%
4316518 304.19.1.1 a+b two layers › Alpha-beta plaits › eIF-2-alpha, C-terminal domain › eIF-2-alpha, C-terminal domain › EIF_2_alpha 0.63 52.0 4.59e-01 94.9% 96.7%
3739303 302.1.1.1 a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.63 52.0 4.27e-01 100.0% 52.5%
3593420 304.25.1.0 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain 0.62 52.0 4.26e-01 96.6% 98.3%
3222596 264.2.1.1 beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain › Topoisom_bac 0.62 52.0 4.11e-01 100.0% 91.9%
3969578 3268.1.1.0 a+b two layers › N-terminal domain in xanthine dehydrogenase › N-terminal domain in xanthine dehydrogenase › N-terminal domain in xanthine dehydrogenase 0.62 40.0 4.18e-01 100.0% 70.9%
5065401 2500.1.1.5 a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › NRDD 0.62 50.0 2.86e-01 89.8% 29.6%
5016617 4121.1.1.1 a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA 0.62 48.0 3.16e-01 86.4% 68.7%
3386604 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.61 53.0 4.30e-01 98.3% 97.4%
4188597 223.3.1.8 a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase2 0.61 46.0 2.97e-01 83.1% 18.2%
4024044 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.61 45.0 3.80e-01 84.7% 45.4%
4967222 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.60 48.0 4.82e-01 100.0% 90.0%
3256398 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 46.0 4.03e-01 100.0% 55.8%
4944154 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.57 41.0 3.33e-01 83.1% 37.6%
5027281 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.57 39.0 3.96e-01 100.0% 69.0%
3628286 223.2.1.33 a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_3 0.57 42.0 3.43e-01 84.7% 81.5%
3432172 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.57 41.0 4.33e-01 100.0% 96.0%
3645596 109.4.1.1476 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, DYW_deaminase, E_motif 0.56 43.0 2.43e-01 79.7% 9.8%
3519046 223.2.1.33 a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_3 0.56 41.0 3.45e-01 84.7% 89.2%
5050481 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.56 41.0 3.22e-01 81.4% 35.3%
3695272 221.1.1.93 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › DUF2420 0.56 41.0 3.31e-01 100.0% 37.0%
3738564 10.12.1.0 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.55 43.0 2.92e-01 88.1% 58.0%
4971396 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 41.0 4.28e-01 100.0% 90.9%
3647077 2487.1.1.7 a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" › PA 0.54 45.0 3.15e-01 100.0% 99.1%
3187671 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.54 43.0 4.29e-01 100.0% 90.0%
4183840 212.1.1.4 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › GHMP_kinases_N,GalKase_gal_bdg 0.54 45.0 3.18e-01 96.6% 79.0%
4990489 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.54 40.0 4.22e-01 98.3% 98.0%
3622256 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.54 42.0 3.26e-01 91.5% 61.9%
3422239 2487.1.1.7 a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" › PA 0.53 42.0 3.02e-01 98.3% 96.5%
4990094 304.56.1.0 a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like 0.53 46.0 4.44e-01 100.0% 98.6%
3172632 221.1.1.93 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › DUF2420 0.53 46.0 3.57e-01 100.0% 68.1%
3485798 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 45.0 3.40e-01 100.0% 43.3%
3574971 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.52 39.0 4.11e-01 100.0% 98.0%
3443843 109.4.1.1291 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.52 43.0 2.47e-01 91.5% 13.3%
3480076 11.1.1.179 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 0.52 44.0 3.39e-01 100.0% 56.9%
3482279 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 43.0 3.07e-01 100.0% 53.0%
3333290 10.32.1.203 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Seipin 0.50 41.0 3.07e-01 100.0% 42.2%