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LacPavin_0818_WC45_scaffold_65992_prodigal-single.1__X__X__00352

Bact-Vir

LacPavin_0818_WC45_scaffold_65992_prodigal-single.1__X__X__00352

Identity

Kingdom:
phage

Quality

85.8 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 2-98
PDB
CATH (44)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.70 47.0 5.16e-01 80.4% 86.8%
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.68 56.0 5.75e-01 91.8% 93.5%
3zoqC00 6.20.250.30 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.65 35.0 4.44e-01 70.1% 94.3%
3hh7A00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.63 31.0 3.70e-01 85.6% 69.2%
2furB00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.62 46.0 3.70e-01 79.4% 86.3%
2mc2A00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.61 42.0 3.33e-01 71.1% 100.0%
4ybnB00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.61 47.0 3.66e-01 81.4% 84.9%
1flmA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.60 43.0 3.98e-01 77.3% 58.2%
2vqpA01 2.70.20.30 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › HRSV-S2 matrix protein, N-terminal domain 0.60 44.0 4.18e-01 78.4% 97.5%
3q8pB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.59 43.0 4.23e-01 78.4% 76.9%
4h3wA02 2.60.120.1260 Mainly Beta › Sandwich › Jelly Rolls › 0.58 44.0 3.78e-01 79.4% 71.7%
2vrsA03 2.60.90.40 Mainly Beta › Sandwich › Adenovirus Type 5 Fiber Protein (Receptor Binding Domain) › 0.57 43.0 3.89e-01 79.4% 84.1%
4d8mA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.57 42.0 3.54e-01 78.4% 68.2%
3zx7A01 2.60.120.980 Mainly Beta › Sandwich › Jelly Rolls › 0.57 43.0 3.64e-01 79.4% 89.9%
1w99A02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.56 42.0 3.38e-01 78.4% 67.5%
5jm6A02 2.30.250.10 Mainly Beta › Roll › Aminopeptidase i, Domain 2 › Aminopeptidase i, Domain 2 0.56 44.0 3.90e-01 84.5% 97.9%
4dyoA02 2.30.250.10 Mainly Beta › Roll › Aminopeptidase i, Domain 2 › Aminopeptidase i, Domain 2 0.56 45.0 4.02e-01 87.6% 97.8%
3dnhA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 43.0 3.74e-01 87.6% 53.6%
5jtwA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 40.0 3.98e-01 75.3% 85.3%
3nqkA02 2.40.128.440 Mainly Beta › Beta Barrel › Lipocalin › Uncharacterised protein PF14274, DUF4361 0.56 38.0 3.32e-01 72.2% 91.3%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.55 36.0 4.18e-01 84.5% 97.0%
6julA02 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.55 41.0 4.18e-01 80.4% 82.3%
5mj6A03 2.60.40.1910 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 38.0 4.17e-01 72.2% 95.0%
1r0uA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.55 38.0 3.38e-01 72.2% 93.7%
2q7nA05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 43.0 4.38e-01 85.6% 84.7%
3e0jB00 3.90.1030.20 Alpha Beta › Alpha-Beta Complex › 50s Ribosomal Protein L17; Chain: A, › DNA polymerase delta, p66 (Cdc27) subunit, wHTH domain 0.54 42.0 3.72e-01 92.8% 56.6%
4eq3A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 42.0 4.12e-01 83.5% 86.1%
4z48A00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.53 39.0 3.02e-01 79.4% 90.4%
2z13A00 2.30.29.170 Mainly Beta › Roll › PH-domain like › 0.53 37.0 3.51e-01 72.2% 78.6%
2hp7A00 3.40.1550.10 Alpha Beta › 3-Layer(aba) Sandwich › Chemotaxis protein chec › CheC-like 0.53 43.0 3.56e-01 88.7% 64.2%
2n59A00 2.60.40.2420 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 40.0 3.96e-01 79.4% 79.2%
4il7A00 2.60.120.1300 Mainly Beta › Sandwich › Jelly Rolls › 0.53 35.0 3.73e-01 77.3% 77.6%
4p04A01 2.60.40.3100 Mainly Beta › Sandwich › Immunoglobulin-like › Arylsulphate sulphotransferase monomer, N-terminal domain 0.53 38.0 3.74e-01 76.3% 75.5%
1nc7A00 2.60.290.11 Mainly Beta › Sandwich › Hypothetical Protein Tm1070; Chain: A › TM1070-like 0.53 39.0 3.66e-01 77.3% 73.3%
3rwnB00 2.60.120.1120 Mainly Beta › Sandwich › Jelly Rolls › Sf6-type phage tail needle knob 0.53 39.0 3.40e-01 79.4% 83.8%
2nytD00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.52 42.0 3.43e-01 86.6% 75.4%
4dohB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 39.0 4.11e-01 83.5% 87.5%
2jvuA00 2.60.40.2290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 39.0 3.94e-01 79.4% 88.8%
3l5iA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 39.0 4.08e-01 84.5% 88.6%
2ebfX01 3.10.670.10 Alpha Beta › Roll › Secreted effector protein ssei fold › Secreted effector protein ssei. 0.51 44.0 3.55e-01 95.9% 92.2%
3c12A02 2.60.40.4070 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 39.0 4.14e-01 87.6% 93.1%
5cvmA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.51 35.0 2.48e-01 71.1% 26.3%
4geiA00 2.60.40.640 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 35.0 3.16e-01 74.2% 91.0%
1cfbA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 38.0 3.71e-01 80.4% 80.2%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4983090 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.72 47.0 5.17e-01 77.3% 82.3%
4996552 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.70 46.0 4.91e-01 80.4% 77.6%
5065436 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.69 43.0 5.10e-01 74.2% 95.3%
4951473 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.67 41.0 4.90e-01 71.1% 95.2%
5013669 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.66 50.0 5.32e-01 79.4% 96.5%
5027528 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.65 37.0 3.99e-01 74.2% 64.7%
3411558 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 0.64 48.0 4.25e-01 79.4% 81.4%
3892042 382.1.1.1 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › UPAR_LY6 0.62 38.0 4.02e-01 85.6% 68.2%
5038654 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 36.0 3.92e-01 70.1% 70.0%
5023972 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.60 42.0 4.43e-01 79.4% 82.4%
3274162 11.10.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like 0.59 42.0 3.91e-01 74.2% 95.2%
3905094 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 0.59 45.0 4.03e-01 80.4% 68.1%
4930826 11.1.5.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.59 42.0 4.24e-01 73.2% 100.0%
4979014 1.1.5.8 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Putative_PNPOx 0.59 43.0 3.91e-01 78.4% 71.1%
4965619 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 39.0 4.21e-01 70.1% 100.0%
4478659 3435.1.1.3 a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › CENP-L 0.58 43.0 3.07e-01 78.4% 32.6%
3380383 210.1.3.5 a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.57 42.0 3.48e-01 97.9% 42.2%
3967781 1.1.5.0 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.56 44.0 3.80e-01 86.6% 85.0%
3894181 101.1.2.115 alpha arrays › HTH › HTH › winged helix domain › CDC27 0.56 44.0 3.61e-01 93.8% 46.9%
3726900 11.1.1.642 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig-like_Pom152_1 0.55 43.0 4.19e-01 83.5% 87.3%
3220022 382.1.1.27 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › DUF7773 0.55 42.0 4.01e-01 82.5% 69.5%
3855706 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 39.0 3.95e-01 75.3% 78.0%
5068693 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 39.0 3.84e-01 74.2% 83.8%
1843712 10.32.1.85 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Cbm74 0.55 40.0 4.01e-01 78.4% 79.4%
4949422 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 39.0 3.79e-01 75.3% 82.7%
3802129 10.32.1.192 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › C-JID 0.54 42.0 2.92e-01 84.5% 38.2%
4444390 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.54 41.0 4.17e-01 80.4% 84.2%
4960415 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 36.0 3.87e-01 70.1% 96.5%
4501238 207.1.1.37 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › C-JID 0.53 39.0 2.96e-01 79.4% 45.7%
5019540 11.1.1.103 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CARDB 0.53 37.0 3.59e-01 73.2% 84.5%
3867707 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.53 42.0 3.94e-01 85.6% 71.3%
4335827 11.1.1.612 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF5443 0.52 39.0 3.46e-01 79.4% 70.3%
1291943 4065.1.1.3 a+b complex topology › L-A virus major coat protein-related › L-A virus major coat protein-related › L-A virus major coat protein-related › Fungal_virus_P2_C 0.52 39.0 2.58e-01 82.5% 37.9%
5032679 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.52 39.0 3.46e-01 79.4% 75.0%
3742122 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.52 35.0 2.96e-01 70.1% 72.1%
4945478 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.52 38.0 3.36e-01 77.3% 84.3%
3165307 5084.5.4.1 beta barrels › Outer membrane meander beta-barrels › Porins › Outer membrane protein transport protein › Toluene_X 0.52 35.0 2.38e-01 71.1% 85.9%
5027725 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 42.0 3.11e-01 87.6% 39.2%
3758760 11.1.1.617 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_TMEM132_2nd 0.51 43.0 3.60e-01 93.8% 76.6%
3604111 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 38.0 3.28e-01 77.3% 86.9%
3555990 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 38.0 3.88e-01 87.6% 81.1%
5001251 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 37.0 3.89e-01 77.3% 85.6%
5046604 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 39.0 3.73e-01 83.5% 87.0%
3846497 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.51 39.0 3.90e-01 85.6% 81.0%
3917098 219.1.1.0 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.50 35.0 2.21e-01 71.1% 13.9%
D2 medium residues 195-261
PDB
Domain cluster: representative
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1yuiA00 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.74 45.0 4.93e-01 70.1% 75.9%
7dklA01 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 44.0 3.59e-01 92.5% 35.1%
3thxB04 1.10.1420.10 Mainly Alpha › Orthogonal Bundle › MutS, DNA mismatch repair protein; Chain A, domain 3 › 0.54 43.0 3.52e-01 94.0% 46.1%
4q28A00 3.30.160.780 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 35.0 3.07e-01 71.6% 88.2%
4by6D02 1.25.40.800 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.51 37.0 2.58e-01 76.1% 95.1%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
8332 386.1.1.15 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › GAGA 0.72 44.0 4.79e-01 70.1% 75.9%
3936248 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.69 48.0 4.23e-01 71.6% 84.2%
4033570 4018.1.1.2 a+b two layers › a+b domain in carbohydrate phosphatases › a+b domain in carbohydrate phosphatases › a+b domain in carbohydrate phosphatases › Inositol_P 0.66 39.0 3.07e-01 77.6% 27.6%
3399453 386.1.1.1 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.66 51.0 5.07e-01 85.1% 95.7%
3571398 386.1.1.1 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.65 45.0 3.21e-01 73.1% 30.0%
3105363 386.1.1.1 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.64 43.0 4.48e-01 70.1% 93.5%
3794544 376.1.1.115 few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › ZZ, zf-Di19 0.62 43.0 3.24e-01 73.1% 35.0%
3215316 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.61 45.0 3.95e-01 79.1% 66.0%
3929077 386.1.1.20 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-met 0.61 44.0 3.75e-01 74.6% 68.6%
3495564 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.61 46.0 4.49e-01 82.1% 85.3%
3543917 5059.1.1.5 alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › UAA 0.61 45.0 2.88e-01 79.1% 31.9%
1883380 1105.1.1.1 alpha complex topology › Retinol uptake receptor STRA6 › Retinol uptake receptor STRA6 › Retinol uptake receptor STRA6 › RBP_receptor 0.58 46.0 2.70e-01 94.0% 10.0%
4546356 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.58 44.0 4.02e-01 79.1% 62.4%
4527101 101.1.2.31 alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha 0.58 48.0 3.56e-01 95.5% 36.9%
3530650 386.1.1.133 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2+zf-C2H2_4 0.58 45.0 4.76e-01 85.1% 100.0%
3295046 101.1.1.121 alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 0.58 40.0 3.30e-01 95.5% 39.2%
3379716 101.1.1.121 alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 0.57 41.0 3.33e-01 97.0% 40.0%