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LacPavin_0818_WC55_scaffold_56344_prodigal-single.1__X__X__00209

Bact-Vir

LacPavin_0818_WC55_scaffold_56344_prodigal-single.1__X__X__00209

Identity

Kingdom:
phage

Quality

95.6 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 medium residues 1-32_141-214
PDB
Domain cluster: representative
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3wstA04 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.62 40.0 3.76e-01 97.2% 53.4%
3o9zA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.60 42.0 3.93e-01 96.2% 59.2%
1khtB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 52.0 4.31e-01 99.1% 71.7%
3ll7A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 40.0 3.26e-01 97.2% 40.0%
2yx1A03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 38.0 3.21e-01 97.2% 40.0%
2b99C00 3.40.50.960 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Lumazine/riboflavin synthase 0.57 47.0 4.10e-01 86.8% 76.3%
3i8oA01 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.57 40.0 3.79e-01 86.8% 60.9%
4psrA01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.56 48.0 3.32e-01 95.3% 49.2%
3ftdA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.55 36.0 3.06e-01 97.2% 40.7%
2fpoC00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 38.0 3.22e-01 97.2% 43.6%
2xveA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 34.0 3.51e-01 92.5% 69.0%
5fydB00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.53 42.0 3.26e-01 87.7% 82.1%
1vpqA00 3.20.20.410 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Protein of unknown function UPF0759 0.52 42.0 3.17e-01 95.3% 35.4%
2otdA01 3.20.20.190 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Phosphatidylinositol (PI) phosphodiesterase 0.52 42.0 3.25e-01 85.8% 62.3%
2g84A01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.52 39.0 3.35e-01 94.3% 49.1%
4qa9A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.52 46.0 3.13e-01 99.1% 92.3%
3ofkA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.52 35.0 2.84e-01 97.2% 36.3%
3slrA01 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.51 41.0 3.28e-01 86.8% 71.4%
4hg2B01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 34.0 2.89e-01 94.3% 42.3%
3aptA00 3.20.20.220 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › 0.51 43.0 3.18e-01 94.3% 42.8%
2omkA00 3.40.50.10240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin pyrophosphokinase, catalytic domain 0.51 40.0 3.15e-01 84.9% 90.1%
5jszA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 42.0 3.03e-01 88.7% 48.9%
2xb4A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 44.0 3.52e-01 100.0% 75.8%
ECOD (21)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4995806 7555.1.1.0 a/b three-layered sandwiches › Alpha-2,3/8-sialyltransferase CstII-related › Alpha-2,3/8-sialyltransferase CstII-related › Alpha-2,3/8-sialyltransferase CstII-related 0.80 73.0 5.56e-01 96.2% 97.7%
4938237 2004.1.1.191 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_17 0.61 54.0 4.53e-01 99.1% 71.9%
4032348 2004.1.1.347 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_24 0.60 48.0 3.65e-01 85.8% 45.6%
4975222 2004.1.1.191 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_17 0.58 52.0 4.26e-01 100.0% 69.5%
5036714 2492.1.1.16 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › TM1506 0.58 32.0 3.13e-01 92.5% 47.5%
4303957 2006.1.6.15 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › DUF58 0.57 49.0 4.33e-01 94.3% 73.5%
4946871 2002.1.1.224 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › SPASM 0.56 49.0 3.33e-01 95.3% 67.3%
4237201 2003.1.1.33 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › DXP_reductoisom 0.55 34.0 2.94e-01 95.3% 39.4%
3961973 2002.1.2.0 a/b barrels › TIM beta/alpha-barrel › TIM barrels › Hypothetical protein Cthe_0052 0.55 48.0 3.88e-01 96.2% 67.5%
5025446 2004.1.1.239 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SLFN-g3_helicase 0.54 43.0 3.55e-01 87.7% 72.4%
4955883 2003.1.7.2 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NagB/RpiA/CoA transferase-like › IF-2B 0.54 37.0 3.12e-01 98.1% 41.7%
5076048 2006.1.4.55 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › NRDD 0.54 48.0 3.80e-01 99.1% 90.9%
3937962 2007.9.1.0 a/b three-layered sandwiches › Flavodoxin-like › Toll/Interleukin receptor TIR domain › Toll/Interleukin receptor TIR domain 0.53 44.0 3.91e-01 94.3% 61.9%
3626624 2007.15.1.0 a/b three-layered sandwiches › Flavodoxin-like › N-deoxyribosyltransferase › N-deoxyribosyltransferase 0.53 43.0 3.85e-01 94.3% 62.3%
3229980 2007.1.9.0 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) 0.52 45.0 4.03e-01 96.2% 67.1%
4009304 2002.1.1.99 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › GHL10 0.52 43.0 2.97e-01 92.5% 55.1%
3644999 2003.1.1.67 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › NAD_binding_10 0.52 46.0 3.61e-01 97.2% 69.5%
3972418 2005.1.1.3 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.52 42.0 3.84e-01 85.8% 68.9%
None 0.51 35.0 2.94e-01 97.2% 41.4%
3680038 2005.1.1.43 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › CHX17_2nd 0.51 41.0 3.38e-01 86.8% 88.9%
4950611 2002.1.1.106 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › GDPD 0.50 40.0 3.13e-01 85.8% 54.8%
D2 medium residues 33-140
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3aw9A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.65 49.0 4.09e-01 80.6% 92.3%
4uwmA00 3.20.20.30 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Luciferase-like domain 0.65 56.0 3.90e-01 95.4% 90.6%
2ggsA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.64 51.0 4.10e-01 84.3% 90.7%
6eztA03 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.64 51.0 3.52e-01 86.1% 36.2%
1bqcA00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.64 52.0 3.82e-01 88.9% 63.2%
2ffiA00 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.63 57.0 4.23e-01 100.0% 67.4%
3zmrB02 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.63 54.0 3.70e-01 93.5% 82.8%
3hbmA02 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.62 44.0 4.05e-01 73.1% 91.5%
3sxpA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.62 47.0 3.78e-01 80.6% 85.6%
6jtdA01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.62 48.0 3.58e-01 81.5% 47.0%
7yjmB01 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.61 46.0 3.58e-01 79.6% 65.1%
7yiyA01 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.61 46.0 3.53e-01 78.7% 64.3%
1g7uA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.61 53.0 3.97e-01 97.2% 62.7%
3g0tA03 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.61 47.0 3.85e-01 83.3% 68.6%
4wpgA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.61 53.0 4.30e-01 96.3% 84.7%
2aeaA00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.61 54.0 4.15e-01 98.1% 95.5%
1eswA00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.59 51.0 3.34e-01 97.2% 39.6%
3sggA02 3.20.20.490 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › GxGYxYP glycoside hydrolase, C-terminal domain 0.57 47.0 3.72e-01 93.5% 87.4%
2z2xA00 3.40.50.200 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidase S8/S53 domain 0.57 50.0 3.58e-01 97.2% 71.7%
4zv9A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.57 50.0 3.94e-01 100.0% 50.4%
1sb8A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.55 48.0 3.73e-01 95.4% 82.1%
6i3mG01 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.55 40.0 3.06e-01 77.8% 79.4%
4j6fA02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.55 45.0 3.94e-01 88.9% 63.5%
2oxaA01 3.40.50.200 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidase S8/S53 domain 0.54 48.0 3.26e-01 100.0% 45.1%
3g2mA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 41.0 3.64e-01 88.9% 68.5%
7fg9A02 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.51 46.0 3.99e-01 97.2% 84.6%
4fkmA01 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.51 35.0 3.83e-01 79.6% 90.6%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3839726 2003.1.1.20 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › Epimerase 0.67 52.0 3.69e-01 82.4% 75.7%
4943112 2002.1.1.60 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › AP_endonuc_2 0.63 56.0 4.19e-01 98.1% 72.7%
3954489 2003.1.1.67 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › NAD_binding_10 0.62 54.0 4.03e-01 93.5% 65.8%
5011206 2002.1.1.83 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Amidohydro_1 0.62 55.0 3.89e-01 99.1% 65.7%
4168863 2002.1.1.28 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › PRAI 0.61 53.0 4.17e-01 97.2% 76.2%
4430054 2002.1.1.76 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › DeoC 0.60 53.0 3.83e-01 100.0% 66.3%
3961742 2003.1.1.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.60 48.0 3.87e-01 86.1% 55.6%
4963298 2002.1.1.418 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › DUF7388 0.59 53.0 4.04e-01 98.1% 94.8%
4648479 7577.1.1.1 a/b three-layered sandwiches › PLP-dependent transferases › PLP-dependent transferases › PLP-dependent transferases › Aminotran_1_2 0.59 45.0 3.29e-01 79.6% 50.5%
4969820 2002.1.1.60 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › AP_endonuc_2 0.58 52.0 3.89e-01 100.0% 85.0%
4928426 2002.1.1.236 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › DHQS 0.58 45.0 4.12e-01 82.4% 80.3%
4092963 2006.1.6.38 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › DUF444 0.57 50.0 4.07e-01 95.4% 86.0%
3696551 2003.1.5.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.56 46.0 3.36e-01 88.0% 39.7%
3065794 7512.1.1.9 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › LpxB 0.56 50.0 3.75e-01 100.0% 61.8%
5059214 7514.1.1.1 a/b three-layered sandwiches › Ferredoxin reductase-like, C-terminal NADP-linked domain › Ferredoxin reductase-like, C-terminal NADP-linked domain › Ferredoxin reductase-like, C-terminal NADP-linked domain › NAD_binding_1 0.55 49.0 4.07e-01 100.0% 62.5%
4004408 7512.1.1.7 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_9 0.55 49.0 4.27e-01 100.0% 88.5%
3969419 7512.1.1.0 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase 0.55 49.0 4.09e-01 100.0% 90.0%
3213691 2007.1.2.0 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.54 47.0 3.91e-01 95.4% 67.9%
4982438 2002.3.1.0 a/b barrels › TIM beta/alpha-barrel › Glycoside hydrolase/deacetylase › Glycoside hydrolase/deacetylase 0.54 47.0 3.72e-01 100.0% 94.7%
3387147 7512.1.1.7 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_9 0.54 49.0 4.10e-01 100.0% 92.8%
4008921 7512.1.1.7 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_9 0.52 38.0 3.17e-01 90.7% 43.7%
3886350 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.51 44.0 4.31e-01 94.4% 85.0%
4038162 2006.1.1.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.51 45.0 3.75e-01 95.4% 98.4%