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LacPavin_0818_WC40_scaffold_354720_prodigal-single.1__X__X__00198

Bact-Vir

LacPavin_0818_WC40_scaffold_354720_prodigal-single.1__X__X__00198

Identity

Kingdom:
phage

Quality

88.4 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 2-58
PDB
Domain cluster: representative
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1vw4U00 3.30.1390.20 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L30; Chain: A, › Ribosomal protein L30/L7 0.74 50.0 4.44e-01 70.2% 73.2%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.67 51.0 4.91e-01 82.5% 74.2%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.67 47.0 4.02e-01 75.4% 54.3%
1wgrA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.66 44.0 3.95e-01 70.2% 73.2%
2hn1A01 3.30.460.20 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › CorA soluble domain-like 0.66 46.0 3.52e-01 75.4% 30.3%
4r7rA00 3.30.1490.410 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Uncharacterised protein PF16224, DUF4883 0.65 45.0 3.45e-01 71.9% 45.9%
4dohE02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.65 48.0 3.91e-01 87.7% 42.5%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.65 48.0 4.13e-01 80.7% 55.4%
2ed8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.64 45.0 3.92e-01 73.7% 50.0%
1ltlA03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.63 44.0 4.66e-01 73.7% 100.0%
6kwzA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.63 43.0 3.69e-01 73.7% 44.9%
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.63 47.0 4.14e-01 84.2% 71.7%
4pofA03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.63 43.0 4.56e-01 71.9% 98.0%
2ww8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 45.0 3.64e-01 75.4% 43.4%
1ca1A02 2.60.60.20 Mainly Beta › Sandwich › Lipoxygenase-1 › PLAT/LH2 domain 0.63 42.0 3.33e-01 70.2% 80.0%
4n0rA03 2.60.40.3950 Mainly Beta › Sandwich › Immunoglobulin-like › 0.63 44.0 3.59e-01 73.7% 50.0%
3bpnC03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 50.0 4.17e-01 89.5% 56.4%
2vfrA02 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.62 45.0 3.49e-01 80.7% 34.6%
4me3A03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.61 43.0 4.35e-01 73.7% 98.2%
1zc1A01 2.40.40.50 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › Ubiquitin fusion degradation protein UFD1, N-terminal domain 0.61 41.0 3.46e-01 70.2% 51.5%
4cvuA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.61 41.0 2.83e-01 70.2% 61.8%
3tcaA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.60 40.0 3.56e-01 70.2% 66.7%
2re9A01 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.60 44.0 3.27e-01 80.7% 66.2%
2jfdA03 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.59 41.0 3.94e-01 73.7% 95.5%
1ktbA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.59 39.0 3.45e-01 75.4% 44.0%
1t3yA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.59 41.0 3.23e-01 75.4% 32.1%
2qsdB02 3.50.100.10 Alpha Beta › 3-Layer(bba) Sandwich › protein il1583 fold › protein il1583 domain 0.59 46.0 4.13e-01 84.2% 66.7%
4iajA00 3.30.1490.390 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 0.59 41.0 3.80e-01 75.4% 63.2%
3weeB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.58 47.0 3.54e-01 100.0% 71.9%
1i7dA03 2.70.20.10 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Topoisomerase I, domain 3 0.58 45.0 3.42e-01 86.0% 92.2%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.57 45.0 3.37e-01 93.0% 50.3%
3qhyA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.57 43.0 2.82e-01 82.5% 86.4%
1ghpA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.57 43.0 2.83e-01 82.5% 87.5%
1vq8B03 3.30.1430.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L3; Chain: B; domain 2, › 0.56 41.0 3.47e-01 82.5% 94.6%
3gv4A00 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.56 37.0 3.14e-01 73.7% 38.4%
3nyiB01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 47.0 3.54e-01 100.0% 86.0%
2dt8A01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.55 37.0 2.82e-01 70.2% 59.7%
7eehA01 2.60.120.620 Mainly Beta › Sandwich › Jelly Rolls › q2cbj1_9rhob like domain 0.55 41.0 2.76e-01 82.5% 27.3%
1wkyA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.55 37.0 2.85e-01 70.2% 59.7%
6hmjA01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.55 39.0 3.19e-01 73.7% 95.2%
4x9xA01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 44.0 3.34e-01 100.0% 35.6%
6nhsA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.54 40.0 2.73e-01 80.7% 64.4%
7rlrA01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.54 39.0 2.60e-01 78.9% 89.3%
1f6fB01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 40.0 3.45e-01 89.5% 50.5%
3am2A02 2.60.120.1050 Mainly Beta › Sandwich › Jelly Rolls › 0.52 36.0 2.96e-01 73.7% 41.0%
2jvuA00 2.60.40.2290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 40.0 3.52e-01 93.0% 53.1%
1pgl100 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.52 39.0 2.86e-01 87.7% 53.5%
6j0qA02 2.40.30.120 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses 0.52 36.0 3.09e-01 77.2% 53.2%
7u7nA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 40.0 3.46e-01 91.2% 53.6%
4nlcA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.51 37.0 2.52e-01 82.5% 82.1%
2yuxA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 36.0 3.11e-01 89.5% 43.5%
ECOD (54)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4599941 887.1.1.0 a+b two layers › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e 0.74 50.0 4.95e-01 70.2% 100.0%
4958689 821.1.1.14 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › DUF2797 0.74 56.0 5.51e-01 82.5% 76.7%
4013619 887.1.1.0 a+b two layers › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e 0.74 50.0 4.44e-01 70.2% 75.0%
2774914 887.1.1.1 a+b two layers › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal_L30 0.71 48.0 3.98e-01 70.2% 59.4%
3414064 379.1.1.0 few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors 0.71 48.0 4.95e-01 77.2% 74.5%
3400735 379.1.1.3 few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors › Kazal_2 0.71 48.0 4.87e-01 77.2% 72.7%
4147528 4.1.1.307 beta barrels › SH3 › SH3 › SH3 › PF26132 0.71 48.0 4.48e-01 70.2% 100.0%
3388590 379.1.1.0 few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors 0.71 47.0 4.65e-01 71.9% 65.0%
3476439 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.70 48.0 4.39e-01 73.7% 54.7%
5032056 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.69 47.0 3.90e-01 71.9% 84.5%
3620613 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.68 46.0 5.16e-01 70.2% 100.0%
3508967 10.32.1.0 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.67 47.0 3.71e-01 71.9% 52.7%
3936711 390.1.1.1 few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like › PAN_1 0.67 45.0 4.16e-01 70.2% 53.3%
4004704 3115.6.1.2 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.66 47.0 5.12e-01 75.4% 97.8%
3486194 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.66 45.0 4.16e-01 73.7% 54.7%
3969006 3115.6.1.2 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.65 46.0 5.01e-01 75.4% 97.8%
4929321 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.65 45.0 4.45e-01 71.9% 68.3%
3855388 221.1.1.76 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.65 43.0 3.72e-01 70.2% 60.0%
3392943 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.64 45.0 3.32e-01 73.7% 37.2%
5027350 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.64 55.0 4.23e-01 100.0% 43.5%
4990489 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.64 44.0 4.63e-01 71.9% 100.0%
3798349 221.1.1.0 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.63 42.0 3.76e-01 70.2% 68.2%
4024947 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.63 48.0 3.90e-01 84.2% 43.5%
5061487 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.63 54.0 4.14e-01 100.0% 40.6%
5078363 2003.1.5.19 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › TRM 0.63 43.0 2.58e-01 70.2% 11.0%
4032123 4112.1.1.1 beta duplicates or obligate multimers › YopX, N-terminal domain-like › YopX, N-terminal domain-like › YopX, N-terminal domain-like › YopX 0.63 43.0 4.25e-01 71.9% 76.7%
6170 221.1.1.76 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.62 41.0 3.52e-01 70.2% 60.0%
4963 4012.1.1.1 a+b two layers › SSHS domain › SSHS domain in type II DNA topoisomerase › SSHS domain in type II DNA topoisomerase › TOPRIM_C 0.61 42.0 4.59e-01 73.7% 100.0%
4161260 7056.1.1.3 few secondary structure elements › Zinc binding domain of metalloprotease Spartan › Zinc binding domain of metalloprotease Spartan › Zinc binding domain of metalloprotease Spartan › Zn_ribbon_SprT 0.61 43.0 4.73e-01 71.9% 93.3%
3849943 221.1.1.76 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.60 40.0 3.08e-01 70.2% 41.4%
3371234 2484.1.1.2 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin 0.59 47.0 3.53e-01 93.0% 66.3%
4216350 2010.1.1.1 a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.59 51.0 3.75e-01 100.0% 83.7%
3549361 11.1.1.794 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › LIFR_D4 0.59 40.0 3.33e-01 71.9% 47.6%
3917163 209.1.1.1 a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.59 40.0 2.94e-01 71.9% 36.0%
3382922 2484.1.1.2 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin 0.59 49.0 3.01e-01 100.0% 89.8%
4881621 10.12.1.43 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › 2OG-Fe_Oxy_2 0.58 41.0 2.79e-01 75.4% 25.7%
3596308 11.1.4.80 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › C2_ITFG1 0.57 45.0 3.47e-01 89.5% 55.7%
3816922 4081.1.1.0 beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related 0.57 40.0 2.61e-01 75.4% 23.6%
3615394 11.1.4.80 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › C2_ITFG1 0.57 45.0 3.62e-01 89.5% 47.5%
3957978 10.12.1.1 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.57 39.0 3.43e-01 73.7% 54.4%
1606334 4.10.1.0 beta barrels › SH3 › Fumarylacetoacetate hydrolase, FAH, N-terminal domain › Fumarylacetoacetate hydrolase, FAH, N-terminal domain 0.56 38.0 3.56e-01 70.2% 98.6%
3460641 206.1.3.16 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › Ins134_P3_kin 0.56 38.0 2.53e-01 71.9% 39.6%
4072763 223.2.1.33 a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_3 0.56 39.0 3.11e-01 75.4% 71.2%
3249305 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.55 39.0 3.17e-01 75.4% 68.6%
3694265 1.1.7.7 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.55 41.0 3.15e-01 82.5% 54.1%
3957374 1.1.5.8 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Putative_PNPOx 0.54 40.0 3.81e-01 82.5% 80.0%
3475306 221.1.1.76 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.54 42.0 3.46e-01 87.7% 64.5%
4405873 223.2.1.33 a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_3 0.54 38.0 3.01e-01 75.4% 70.4%
3685786 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.53 39.0 2.79e-01 86.0% 24.3%
3593442 221.1.1.0 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.52 37.0 3.20e-01 93.0% 42.9%
4976090 375.1.1.325 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › OapC 0.52 34.0 3.62e-01 93.0% 88.9%
3236126 10.10.1.1 beta sandwiches › jelly-roll › Lipase/lipooxygenase domain (PLAT/LH2 domain) › Lipase/lipooxygenase domain (PLAT/LH2 domain) › PLAT 0.51 38.0 3.02e-01 82.5% 44.8%
4028366 212.1.1.0 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like 0.50 36.0 3.35e-01 78.9% 59.5%
3624443 5001.1.1.1 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.50 37.0 2.34e-01 100.0% 12.8%