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LacPavin_0818_WC40_scaffold_26136_prodigal-single.1__X__X__00329

Bact-Vir

LacPavin_0818_WC40_scaffold_26136_prodigal-single.1__X__X__00329

Identity

Kingdom:
phage

Quality

73.4 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 666-812
PDB
D2 high residues 1184-1330
PDB
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5cbeE00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.65 20.0 3.08e-01 76.2% 62.5%
1gutA00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.61 23.0 3.35e-01 79.6% 74.6%
1f9qD00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.59 22.0 3.15e-01 70.1% 71.2%
1icwB00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.58 23.0 3.28e-01 70.1% 77.3%
1a15A00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 20.0 2.83e-01 74.8% 67.2%
1eotA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.53 20.0 2.77e-01 70.7% 66.2%
5os9A00 2.40.330.10 Mainly Beta › Beta Barrel › At1g16640 B3 domain › DNA-binding pseudobarrel domain 0.53 36.0 4.03e-01 76.2% 90.4%
2gu3A01 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 24.0 3.31e-01 98.0% 93.8%
2x5gA00 3.30.720.60 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.51 24.0 2.91e-01 100.0% 67.0%
3oxhA01 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.50 29.0 3.05e-01 100.0% 59.9%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4456732 325.1.7.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.56 23.0 2.99e-01 76.9% 65.0%
4127839 325.1.7.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.55 23.0 3.10e-01 79.6% 72.0%
4183857 325.1.7.30 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › Peptidase_M23 0.54 23.0 3.03e-01 78.9% 70.7%
3211478 214.1.1.0 a+b two layers › SH2 › SH2 › SH2 0.53 33.0 3.58e-01 91.2% 73.3%
3624447 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.53 32.0 3.67e-01 91.2% 80.0%
D3 medium residues 14-54_204-246
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4n0rA03 2.60.40.3950 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 39.0 3.64e-01 95.2% 53.6%
3bvxA05 2.60.40.1360 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 33.0 3.15e-01 90.5% 46.9%
2vzsA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.57 36.0 2.81e-01 94.0% 28.3%
5n9bA01 2.60.40.2160 Mainly Beta › Sandwich › Immunoglobulin-like › Interleukin-17 receptor A/B, fibronectin-III-like domain 1 0.56 38.0 3.28e-01 92.9% 43.1%
3h7lA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 40.0 3.88e-01 91.7% 66.7%
4i0kA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 46.0 4.32e-01 96.4% 72.4%
2w40A01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.56 46.0 3.25e-01 89.3% 66.9%
2ln7A00 2.40.260.10 Mainly Beta › Beta Barrel › Sortase; Chain: A; › Sortase 0.55 45.0 3.73e-01 88.1% 54.4%
6x4tA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 44.0 4.03e-01 96.4% 68.7%
5mj6A03 2.60.40.1910 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 35.0 3.61e-01 94.0% 72.5%
4qycB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 39.0 3.79e-01 92.9% 70.7%
3eipA00 3.10.50.20 Alpha Beta › Roll › Chitinase A; domain 3 › Cloacin immunity protein 0.51 41.0 4.18e-01 88.1% 92.9%
5jzxD02 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.51 32.0 2.75e-01 97.6% 37.0%
1uwvA03 2.40.50.1070 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 39.0 3.37e-01 84.5% 55.5%
2nx8A00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.51 42.0 3.37e-01 91.7% 71.4%
ECOD (22)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4978986 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 41.0 3.81e-01 95.2% 52.7%
4105321 12.1.1.0 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.61 33.0 3.13e-01 89.3% 43.0%
3245822 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 41.0 4.03e-01 94.0% 64.4%
3863267 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.61 42.0 3.96e-01 91.7% 60.0%
3258411 10.32.1.0 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.59 40.0 3.65e-01 92.9% 51.3%
3267244 12.3.1.46 beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › ComC_SSD 0.59 50.0 3.64e-01 97.6% 57.2%
4950754 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.59 39.0 3.63e-01 92.9% 54.8%
4256349 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 36.0 3.71e-01 90.5% 63.7%
3968712 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.58 40.0 4.14e-01 95.2% 76.2%
4945026 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.58 41.0 3.79e-01 94.0% 57.3%
3930372 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 41.0 3.90e-01 96.4% 61.9%
3702373 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 38.0 3.72e-01 95.2% 67.8%
3631387 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.54 35.0 3.83e-01 92.9% 80.0%
3784857 2492.1.1.1 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › dCMP_cyt_deam_1 0.54 45.0 3.24e-01 91.7% 51.2%
3621262 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.54 32.0 3.62e-01 91.7% 81.7%
4001868 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 39.0 3.62e-01 95.2% 60.0%
4013793 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 35.0 3.09e-01 92.9% 45.6%
5043896 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 33.0 3.29e-01 95.2% 58.9%
3396187 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 41.0 4.08e-01 91.7% 80.0%
3701320 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 39.0 3.77e-01 95.2% 69.0%
3733539 2492.1.1.1 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › dCMP_cyt_deam_1 0.52 43.0 3.44e-01 91.7% 75.9%
3876905 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.51 42.0 3.62e-01 92.9% 73.6%
D4 medium residues 55-203
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2l8yA00 3.30.110.70 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Hypothetical protein apc22750. Chain B 0.50 28.0 3.32e-01 85.9% 77.1%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4400919 304.114.1.0 a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.61 26.0 3.66e-01 73.8% 80.0%
4978362 304.114.1.0 a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.57 26.0 3.47e-01 75.2% 80.0%
4929238 304.114.1.0 a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.51 24.0 3.13e-01 75.8% 81.3%
D5 medium residues 267-306_513-569
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2np3A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.51 36.0 3.19e-01 72.2% 91.5%
D6 medium residues 418-500
PDB
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3qwxX01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.61 44.0 4.01e-01 77.1% 62.5%
2oq1A03 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.59 40.0 3.85e-01 71.1% 62.0%
1ecsA00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.59 38.0 3.43e-01 79.5% 46.7%
4ms4B02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.57 41.0 3.27e-01 77.1% 86.7%
6lbtA01 2.40.50.810 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 40.0 3.44e-01 74.7% 90.1%
1erjB00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.55 41.0 2.75e-01 79.5% 81.0%
1w4bA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 41.0 3.03e-01 79.5% 76.5%
4ms4A02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.55 41.0 3.19e-01 79.5% 85.3%
3li9A01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.54 38.0 3.38e-01 74.7% 97.6%
2xp1A01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.52 40.0 3.89e-01 83.1% 78.9%
1amiA04 3.20.19.10 Alpha Beta › Alpha-Beta Barrel › Aconitase; domain 4 › Aconitase, domain 4 0.52 37.0 2.84e-01 77.1% 85.1%
1jofA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 38.0 2.53e-01 77.1% 91.8%
3qokA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.52 37.0 3.52e-01 74.7% 99.0%
5bukB00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 37.0 2.37e-01 75.9% 57.5%
3c4aA02 3.30.9.20 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › 0.51 37.0 3.08e-01 77.1% 99.3%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5000283 2006.1.2.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › DHH phosphoesterases 0.63 44.0 3.23e-01 73.5% 48.0%
3196339 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.61 42.0 3.64e-01 71.1% 75.4%
3502260 214.1.1.9 a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.61 42.0 3.73e-01 72.3% 49.6%
5043115 7502.1.1.0 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.58 44.0 3.52e-01 80.7% 62.9%
3934183 214.1.1.9 a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.58 40.0 3.72e-01 71.1% 57.1%
None 0.58 43.0 2.85e-01 80.7% 62.4%
3516794 214.1.1.0 a+b two layers › SH2 › SH2 › SH2 0.58 40.0 3.46e-01 73.5% 48.6%
4622776 4126.1.1.6 a/b three-layered sandwiches › beta-carbonic anhydrase-like › beta-carbonic anhydrase › beta-carbonic anhydrase › DabA 0.57 42.0 3.10e-01 78.3% 77.7%
4059013 5.1.4.481 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › BNR, Sortilin-Vps10 0.57 42.0 2.37e-01 78.3% 80.7%
3884108 219.1.1.6 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Acetyltransf_2 0.55 39.0 2.82e-01 75.9% 32.2%
3450833 10.1.1.58 beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Neprosin 0.55 37.0 3.00e-01 77.1% 38.0%
3729220 2003.1.2.16 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3,NAD_binding_8 0.55 40.0 2.56e-01 78.3% 48.5%
1384885 214.1.1.6 a+b two layers › SH2 › SH2 › SH2 › SH2_2 0.53 40.0 4.00e-01 81.9% 85.2%
3624184 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.53 42.0 3.84e-01 88.0% 64.3%
4967645 2003.1.2.29 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › NAD_binding_8 0.53 41.0 2.80e-01 86.7% 56.6%
3989530 2007.1.2.13 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › Peripla_BP_6 0.52 39.0 3.36e-01 83.1% 88.7%
5010478 2003.1.2.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.52 40.0 2.78e-01 85.5% 55.0%
4977799 2003.1.2.15 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.52 38.0 2.53e-01 80.7% 81.2%
4857588 219.1.1.6 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Acetyltransf_2 0.52 41.0 3.00e-01 86.7% 42.0%
D7 medium residues 823-1004
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF15711.11 best ILEI 30.1 7.60e-07 52.8% 87.8%
D8 medium residues 1087-1136
PDB