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NC_062753.1__YP_010357530.1__M1M31_gp88__00088

Bact-Vir

NC_062753.1__YP_010357530.1__M1M31_gp88__00088

Identity

Accession:
NC_062753 ↗
Kingdom:
phage

Quality

90.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Assiduviridae› Nekkelsvirus› Cellulophaga_phage_Nekkels_1

TaxID: 2745692

Cluster

View cluster (10 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 5-157
PDB
Domain cluster: rep: IMGVR_UViG_3300028840_006907-3300028840-Ga0309773_1000015305__D84-207
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3fovA00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.72 46.0 5.44e-01 98.7% 95.1%
1m6eX02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.68 45.0 3.96e-01 77.1% 47.2%
4f0qA02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.66 51.0 4.76e-01 98.0% 64.6%
4hlbA00 3.30.70.2960 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 37.0 4.52e-01 81.7% 88.4%
3b5iB01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.64 44.0 3.71e-01 76.5% 42.9%
2inbA00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.64 51.0 5.47e-01 99.3% 99.2%
2fgyA03 3.30.1330.140 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Carboxysome Shell Carbonic Anhydrase, C-terminal domain 0.61 41.0 4.68e-01 97.4% 88.9%
2cvzA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.60 47.0 4.73e-01 100.0% 80.1%
5f2kB02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 40.0 3.56e-01 76.5% 47.2%
2ewfA03 3.40.91.50 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.60 55.0 4.83e-01 100.0% 78.7%
3ua3A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.59 40.0 3.84e-01 77.1% 59.0%
4dapA02 3.40.1350.60 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.59 53.0 5.36e-01 100.0% 98.0%
4hn3A00 3.10.570.10 Alpha Beta › Roll › sex pheromone staph- cam373 precursor fold › sex pheromone staph- cam373 precursor domain 0.58 53.0 4.08e-01 98.7% 70.2%
2ql8A00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.57 35.0 3.72e-01 81.0% 66.4%
2yc4C00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 45.0 4.35e-01 99.3% 72.9%
3q9lA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 50.0 4.25e-01 100.0% 95.3%
3un1C00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.54 49.0 4.28e-01 100.0% 92.3%
1zzgA02 3.40.50.10490 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glucose-6-phosphate isomerase like protein; domain 1 0.54 42.0 4.07e-01 99.3% 73.4%
1otgA00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.54 39.0 4.30e-01 94.1% 92.8%
1yxmC00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.53 49.0 4.06e-01 100.0% 77.7%
2e8eA00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.53 34.0 3.63e-01 75.8% 73.5%
1i74A02 3.10.310.20 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › DHHA2 domain 0.53 37.0 4.13e-01 99.3% 90.8%
1mwwB00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.53 39.0 4.34e-01 91.5% 97.5%
1hdcA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.53 47.0 4.03e-01 98.7% 91.3%
2ohhA02 3.40.50.360 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Flavodoxin domain 0.53 41.0 4.26e-01 99.3% 88.2%
2os5A00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.52 37.0 4.17e-01 94.1% 94.9%
3ppiC00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 46.0 3.95e-01 98.7% 91.7%
3oc9A00 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 0.52 38.0 2.81e-01 76.5% 36.0%
1jvbA02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 38.0 4.01e-01 92.2% 83.7%
4zohA02 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.52 36.0 3.86e-01 71.2% 92.5%
3n2qA02 3.30.300.190 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.52 36.0 4.11e-01 72.5% 97.4%
6lkvA01 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.51 36.0 3.89e-01 94.1% 83.5%
1vw5B00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.51 36.0 4.13e-01 94.8% 100.0%
4dh4A00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.51 36.0 4.13e-01 94.1% 99.1%
2qhaA00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.51 44.0 3.44e-01 94.8% 82.1%
6kv9A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.51 46.0 4.24e-01 100.0% 94.9%
2fltA00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.50 37.0 4.14e-01 94.1% 100.0%
1rliD00 3.40.50.360 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Flavodoxin domain 0.50 45.0 4.39e-01 100.0% 93.5%
4jj9C00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.50 41.0 4.22e-01 94.8% 91.0%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5009647 2008.1.1.235 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PF26618 0.78 57.0 5.07e-01 100.0% 54.8%
5021996 2008.1.1.108 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF234 0.77 55.0 6.33e-01 98.7% 97.4%
4944782 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.69 56.0 5.65e-01 99.3% 85.3%
3680941 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.67 47.0 5.58e-01 73.2% 100.0%
3312804 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.67 60.0 5.43e-01 94.1% 76.4%
5043632 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.66 52.0 4.75e-01 100.0% 64.4%
3944555 2008.1.1.103 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Transposase_31 0.66 55.0 5.56e-01 87.6% 94.0%
11040 2008.1.1.32 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › XisH 0.64 51.0 5.49e-01 100.0% 99.2%
3730197 327.7.1.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like › ZT_dimer 0.64 35.0 4.46e-01 79.1% 91.1%
3719951 2496.1.1.2 ↗ a/b three-layered sandwiches › SpoIIaa-like › SpoIIaa-like › SpoIIaa-like › STAS 0.63 43.0 4.75e-01 100.0% 85.6%
3611760 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.63 56.0 4.76e-01 97.4% 83.1%
4552243 2003.1.5.30 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_7 0.62 43.0 3.19e-01 76.5% 28.8%
3612299 2496.1.1.0 ↗ a/b three-layered sandwiches › SpoIIaa-like › SpoIIaa-like › SpoIIaa-like 0.62 44.0 4.84e-01 100.0% 91.7%
4783704 109.49.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Helical domain in acetyl-CoA carboxylase › Helical domain in acetyl-CoA carboxylase › ACC_central 0.61 44.0 5.01e-01 81.7% 100.0%
3457716 2003.1.5.30 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_7 0.60 43.0 3.71e-01 75.2% 47.5%
3233351 2008.6.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Acetyl-CoA carboxylase AC4 and AC5 domains › Acetyl-CoA carboxylase AC4 and AC5 domains 0.60 52.0 4.70e-01 96.1% 76.3%
3699720 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.59 41.0 3.79e-01 76.5% 56.0%
3433514 2003.1.5.30 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_7 0.59 43.0 3.18e-01 75.2% 30.5%
3427877 2003.1.5.30 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_7 0.58 41.0 3.20e-01 76.5% 33.1%
4359810 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.58 43.0 3.60e-01 77.1% 73.0%
3616334 2008.6.1.1 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Acetyl-CoA carboxylase AC4 and AC5 domains › Acetyl-CoA carboxylase AC4 and AC5 domains › ACC_central 0.58 52.0 4.51e-01 97.4% 69.1%
4946571 2008.1.1.85 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_TdeIII 0.57 51.0 4.60e-01 96.7% 72.2%
4025946 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.57 42.0 4.31e-01 98.0% 78.7%
3939832 2006.1.6.39 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › Mat89Bb 0.56 51.0 4.38e-01 100.0% 89.8%
3395158 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.55 50.0 4.24e-01 100.0% 86.9%
4133826 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.55 49.0 4.17e-01 100.0% 87.2%
5071249 2007.1.3.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like 0.54 44.0 4.39e-01 99.3% 82.5%
3964637 2008.1.1.169 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PF29649 0.54 44.0 4.03e-01 88.9% 74.3%
223513 315.1.1.3 ↗ a+b two layers › Tautomerase/MIF-like › Tautomerase/MIF › Tautomerase/MIF › CHMI 0.54 40.0 4.33e-01 96.7% 92.2%
3720125 2004.1.1.325 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › TRAPPC-Trs85 0.53 48.0 4.38e-01 100.0% 81.9%
5078940 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.53 43.0 4.36e-01 98.0% 85.8%
3614243 109.4.1.339 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TRAPPC-Trs85 0.53 48.0 3.07e-01 100.0% 44.8%
2137592 315.1.1.6 ↗ a+b two layers › Tautomerase/MIF-like › Tautomerase/MIF › Tautomerase/MIF › Tautomerase_3 0.52 37.0 4.18e-01 94.8% 98.2%
5053229 2004.1.1.119 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Gtr1_RagA 0.52 42.0 4.31e-01 99.3% 90.0%
4306177 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.51 48.0 3.54e-01 100.0% 55.5%
2879277 2003.1.1.69 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short_C2 0.51 46.0 3.98e-01 100.0% 88.9%
3272325 2003.1.5.67 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_12 0.51 39.0 3.36e-01 81.7% 52.0%
5053689 2002.1.1.66 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › DHquinase_I 0.50 44.0 3.80e-01 98.7% 64.3%