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SR-VP_4-6_scaffold_141_2630357_prodigal-single.1__X__X__00502

Bact-Vir

SR-VP_4-6_scaffold_141_2630357_prodigal-single.1__X__X__00502

Identity

Kingdom:
phage

Quality

96.0 mean pLDDT

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 1-140_234-250
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3lyuA01 3.40.50.80 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module 0.66 41.0 4.78e-01 82.8% 87.5%
1p5jA02 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.62 34.0 4.17e-01 84.1% 84.4%
3lk7A03 3.90.190.20 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Mur ligase, C-terminal domain 0.60 33.0 3.59e-01 83.4% 61.9%
7zvjA01 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 0.60 52.0 4.46e-01 93.6% 99.2%
1foaA01 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 0.59 55.0 4.94e-01 99.4% 100.0%
2p6pB01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.59 48.0 4.41e-01 88.5% 94.8%
1xeaA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.58 35.0 3.95e-01 84.7% 78.2%
4cvhA01 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 0.58 51.0 4.45e-01 94.9% 99.1%
1booA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 45.0 3.71e-01 83.4% 68.1%
3cgxA00 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 0.57 52.0 4.56e-01 100.0% 97.4%
3otgA01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.56 49.0 4.35e-01 94.3% 94.2%
2p9jB00 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.55 45.0 4.54e-01 88.5% 93.8%
4relA01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.54 47.0 3.98e-01 95.5% 89.2%
4mixA00 3.90.550.20 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › 0.54 40.0 3.37e-01 89.2% 44.6%
7l4aA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 39.0 3.53e-01 75.8% 85.8%
1cydA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.53 40.0 3.45e-01 77.7% 90.5%
3kzvA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.53 39.0 3.42e-01 77.7% 60.6%
3oqbA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.53 37.0 3.91e-01 86.0% 79.9%
1kngA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.53 36.0 3.76e-01 88.5% 75.0%
5b1hA01 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 40.0 3.69e-01 82.8% 61.5%
4dyvA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.53 39.0 3.58e-01 77.7% 60.1%
2e2oA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 38.0 4.13e-01 74.5% 94.7%
2ehdA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 39.0 3.56e-01 77.1% 59.9%
3eurA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.52 36.0 3.81e-01 88.5% 78.6%
3gvcA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 39.0 3.39e-01 77.7% 90.6%
1lu4A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.52 35.0 3.75e-01 87.9% 78.4%
3gl3D00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.52 36.0 3.85e-01 88.5% 81.0%
2iueA00 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.52 43.0 3.93e-01 89.2% 98.6%
3gqwB01 3.40.50.12780 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain 0.52 41.0 3.02e-01 84.7% 75.7%
3drnB00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.52 37.0 3.77e-01 88.5% 76.0%
3gkmA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.51 38.0 3.83e-01 88.5% 77.1%
6yv8A01 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 0.51 47.0 4.15e-01 98.1% 90.0%
3lqyA00 3.40.50.850 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Isochorismatase-like 0.51 42.0 3.98e-01 89.2% 98.4%
1o6cB01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.51 44.0 4.01e-01 96.2% 84.8%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4165435 7570.1.1.1 a/b three-layered sandwiches › MurD-like peptide ligases, peptide-binding domain › MurD-like peptide ligases, peptide-binding domain › MurD-like peptide ligases, peptide-binding domain › Mur_ligase_C 0.68 37.0 3.84e-01 84.1% 55.0%
1309317 2005.1.1.11 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › ATP_bind_3 0.67 46.0 4.99e-01 87.3% 82.8%
5083576 7516.1.1.2 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.65 47.0 4.10e-01 89.2% 51.1%
3225151 7516.1.1.78 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › DUF1647 0.65 45.0 3.67e-01 88.5% 37.5%
3590841 7516.1.1.11 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › CTP_transf_3 0.65 57.0 4.88e-01 94.3% 98.0%
3388227 7570.1.1.0 a/b three-layered sandwiches › MurD-like peptide ligases, peptide-binding domain › MurD-like peptide ligases, peptide-binding domain › MurD-like peptide ligases, peptide-binding domain 0.65 36.0 3.84e-01 84.1% 60.7%
3238070 7516.1.1.78 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › DUF1647 0.64 45.0 3.89e-01 89.2% 45.7%
5030030 7516.1.1.2 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.64 49.0 3.87e-01 91.7% 41.1%
4939123 7516.1.1.0 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases 0.63 49.0 4.78e-01 89.2% 74.7%
4928374 2005.1.1.4 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Asn_synthase 0.62 51.0 5.18e-01 95.5% 89.0%
None 0.61 48.0 4.97e-01 99.4% 86.7%
3286962 2003.1.1.3 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.60 45.0 3.92e-01 77.7% 90.6%
3586951 7516.1.1.0 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases 0.58 51.0 4.14e-01 94.3% 99.3%
None 0.58 51.0 4.12e-01 96.2% 81.0%
5037878 2005.1.1.18 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › NAD_synthase 0.57 52.0 4.49e-01 100.0% 83.2%
3238160 7516.1.1.52 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotid_trans 0.57 51.0 3.92e-01 96.2% 70.0%
3668512 7516.1.1.6 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glyco_transf_8 0.57 52.0 4.09e-01 100.0% 81.2%
4943110 2005.1.1.111 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › GMP_synt_C 0.57 52.0 4.81e-01 100.0% 87.0%
None 0.56 51.0 4.78e-01 100.0% 90.3%
4038998 2005.1.1.14 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › PAPS_reduct 0.56 51.0 4.78e-01 100.0% 89.7%
3235706 7512.1.1.1 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDPGT 0.56 49.0 4.13e-01 95.5% 98.9%
3946853 2007.1.3.1 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like › Response_reg 0.56 30.0 3.14e-01 75.8% 52.7%
5022648 2011.2.1.0 a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like 0.55 39.0 4.40e-01 72.6% 100.0%
3499873 2004.1.1.192 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_18 0.55 41.0 3.82e-01 77.7% 92.0%
5029721 7516.1.1.2 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.55 51.0 4.33e-01 98.7% 89.7%
5029015 7516.1.1.0 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases 0.54 49.0 4.36e-01 99.4% 98.2%
3288362 7512.1.1.30 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_4 0.53 46.0 4.26e-01 94.3% 90.2%
5025786 7516.1.1.79 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glyco_trans_2_3 0.53 49.0 3.40e-01 99.4% 85.6%
3541109 2006.1.6.2 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › Integrin_beta 0.53 45.0 3.85e-01 89.2% 97.1%
3594362 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.53 46.0 3.72e-01 95.5% 93.7%
3279399 2007.2.1.2 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › Flavoproteins › Flavodoxin_2 0.53 40.0 3.63e-01 77.7% 99.5%
4088504 2485.1.1.0 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.53 36.0 3.86e-01 87.9% 80.0%
4249852 2005.1.1.7 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d 0.52 47.0 3.95e-01 100.0% 99.3%
2707824 2004.1.1.80 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Cytidylate_kin 0.52 39.0 3.52e-01 78.3% 97.3%
3670313 7512.1.1.0 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase 0.52 45.0 3.71e-01 95.5% 88.8%
4461868 2002.1.1.120 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.51 42.0 3.22e-01 87.9% 79.5%
None 0.51 43.0 3.65e-01 92.4% 98.1%
4944069 7516.1.1.26 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glyco_tranf_2_3 0.51 47.0 3.24e-01 100.0% 41.7%
4937479 7516.1.1.26 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glyco_tranf_2_3 0.51 47.0 3.57e-01 100.0% 57.4%
5057447 7516.1.1.2 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.51 46.0 4.12e-01 98.1% 90.0%
5056112 7516.1.1.2 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.51 46.0 3.49e-01 98.1% 55.3%
4467915 2005.1.1.7 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d 0.50 45.0 3.82e-01 98.7% 98.8%
5009899 7516.1.1.2 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.50 46.0 3.98e-01 98.7% 80.4%
D2 medium residues 141-233
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2j0aA00 3.90.550.50 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › 0.67 60.0 4.42e-01 100.0% 46.9%
7uqyB01 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 0.64 52.0 4.00e-01 89.2% 48.6%
1o4wA00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.50 34.0 3.15e-01 71.0% 91.2%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3810305 7516.1.1.105 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Fringe, DUF604 0.69 62.0 4.62e-01 100.0% 53.8%
3940849 7516.1.1.12 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Fringe 0.69 61.0 4.40e-01 100.0% 44.0%
3787800 7516.1.1.6 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glyco_transf_8 0.66 59.0 4.29e-01 100.0% 47.3%
4011293 7516.1.1.0 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases 0.63 55.0 4.13e-01 100.0% 49.4%
5026145 7516.1.1.24 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › NTP_transf_3 0.60 47.0 3.92e-01 100.0% 46.3%
5016820 7516.1.1.24 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › NTP_transf_3 0.57 47.0 3.66e-01 91.4% 40.7%
3701698 7516.1.1.2 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.54 45.0 3.38e-01 92.5% 43.8%