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NC_062753.1__YP_010357519.1__M1M31_gp77__00077

Bact-Vir

NC_062753.1__YP_010357519.1__M1M31_gp77__00077

Identity

Accession:
NC_062753 ↗
Kingdom:
phage

Quality

71.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Assiduviridae› Nekkelsvirus› Cellulophaga_phage_Nekkels_1

TaxID: 2745692

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 2-89
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.84 40.0 4.03e-01 77.3% 46.2%
2o38A01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.74 52.0 5.95e-01 76.1% 100.0%
3kraC00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.72 49.0 3.45e-01 70.5% 68.3%
2gf4A00 1.20.1270.110 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Uncharacterised protein family UPF0058 0.69 57.0 5.75e-01 97.7% 90.9%
3umbA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.67 33.0 3.51e-01 92.0% 51.9%
1siqA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.67 59.0 4.87e-01 96.6% 70.3%
1qsdA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 42.0 4.06e-01 76.1% 54.9%
2p1aB01 1.20.120.450 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › dinb family like domain 0.66 54.0 4.61e-01 90.9% 100.0%
2ofyA01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.66 45.0 4.91e-01 80.7% 88.6%
4xvxA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.66 58.0 4.87e-01 96.6% 72.1%
1rx0A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.65 56.0 4.67e-01 95.5% 71.6%
2jnsA01 1.20.1270.220 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.64 47.0 4.93e-01 78.4% 85.2%
1w07A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.63 53.0 4.26e-01 92.0% 72.0%
6p73A02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.63 55.0 4.69e-01 96.6% 69.2%
2etdA00 1.20.1440.20 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › LemA-like domain 0.63 49.0 4.20e-01 88.6% 52.5%
7wivA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.63 46.0 3.09e-01 76.1% 30.9%
2zopA00 1.10.520.30 Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › AF1862-like domain 0.61 48.0 4.46e-01 85.2% 66.1%
4ghjB00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.61 41.0 4.35e-01 77.3% 81.6%
3caxA01 1.20.120.520 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › nmb1532 protein domain like 0.60 52.0 3.97e-01 98.9% 51.2%
1b0bA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.60 45.0 3.88e-01 80.7% 66.0%
2zs0A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.59 42.0 3.67e-01 76.1% 85.7%
1orjD00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.59 48.0 4.35e-01 93.2% 64.8%
5jazA03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.58 39.0 3.88e-01 81.8% 65.9%
1a5tA02 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.57 27.0 3.82e-01 76.1% 100.0%
1wdhA02 1.10.720.60 Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › 0.57 41.0 3.95e-01 76.1% 93.1%
6todA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.56 48.0 3.39e-01 98.9% 43.6%
1td6A03 1.10.472.40 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Hypothetical protein mg237 homolog; domain 3 0.54 37.0 3.69e-01 83.0% 67.4%
1wpaA01 6.10.140.340 Special › Helix non-globular › Helix Hairpins › 0.53 37.0 3.62e-01 72.7% 90.9%
7yu4A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.53 47.0 3.36e-01 96.6% 72.4%
5ekdA02 1.10.240.10 Mainly Alpha › Orthogonal Bundle › Tyrosyl-Transfer RNA Synthetase › Tyrosyl-Transfer RNA Synthetase 0.52 39.0 3.72e-01 96.6% 64.9%
3hm6X01 1.10.506.10 Mainly Alpha › Orthogonal Bundle › GTPase Activation - p120GAP; domain 1 › GTPase Activation - p120gap; domain 1 0.52 38.0 2.51e-01 77.3% 18.2%
5nl6A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 45.0 4.21e-01 94.3% 95.4%
3rrwB01 1.10.520.10 Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › 0.52 40.0 3.17e-01 94.3% 40.1%
1a22A00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.51 45.0 3.57e-01 97.7% 80.0%
1x1fA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 35.0 3.00e-01 72.7% 57.7%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4149897 101.1.2.107 ↗ alpha arrays › HTH › HTH › winged helix domain › STN1_2 0.71 33.0 3.21e-01 79.5% 38.0%
3924919 148.1.1.0 ↗ alpha arrays › Histone-like › Histone-related › Histone 0.70 53.0 4.89e-01 80.7% 84.2%
4003164 632.7.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.67 49.0 3.32e-01 76.1% 60.3%
3597879 3525.1.1.0 ↗ alpha arrays › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain 0.67 45.0 5.17e-01 71.6% 100.0%
3914926 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.67 49.0 3.62e-01 78.4% 29.8%
5028679 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.67 60.0 5.69e-01 100.0% 98.1%
3881288 3710.1.1.1 ↗ alpha bundles › Golgi to ER traffic protein 1 cytosolic domain › Golgi to ER traffic protein 1 cytosolic domain › Golgi to ER traffic protein 1 cytosolic domain › CHD5 0.66 50.0 4.66e-01 79.5% 84.5%
4939850 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.66 59.0 5.40e-01 100.0% 77.1%
3685214 632.18.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › hypothetical protein PA2901 › hypothetical protein PA2901 0.66 53.0 5.47e-01 87.5% 89.4%
3308985 632.7.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.66 56.0 5.35e-01 92.0% 86.0%
3980119 101.1.4.3 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › HTH_3 0.65 45.0 4.93e-01 77.3% 90.0%
4070925 4044.1.1.1 ↗ alpha bundles › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Prismane 0.65 55.0 5.72e-01 90.9% 100.0%
5041516 1075.1.1.3 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › ABC2_membrane_2 0.65 44.0 3.01e-01 72.7% 21.4%
3635468 604.30.1.0 ↗ alpha bundles › Spectrin repeat-like › Gamma-secretase subunit PEN-2 › Gamma-secretase subunit PEN-2 0.64 46.0 4.72e-01 73.9% 77.6%
3273910 622.4.1.0 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.64 46.0 4.22e-01 75.0% 65.2%
3483899 5081.1.1.1 ↗ alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like › Rhomboid 0.64 55.0 4.81e-01 94.3% 64.8%
4944401 150.1.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.63 52.0 4.28e-01 96.6% 50.3%
3486259 145.1.1.0 ↗ alpha arrays › F-box domain › F-box domain › F-box domain 0.62 46.0 4.51e-01 79.5% 98.9%
4003837 4970.1.1.0 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.60 42.0 4.03e-01 73.9% 64.0%
3511084 3922.1.1.225 ↗ alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › DUF842 0.58 42.0 3.76e-01 76.1% 53.6%
3911717 192.29.1.25 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › CA109-like 0.57 53.0 3.98e-01 100.0% 80.5%
3419333 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.57 45.0 3.58e-01 85.2% 72.2%
3521510 192.7.1.73 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › PF31020 0.57 40.0 3.74e-01 73.9% 100.0%
4115486 604.3.1.11 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › DUF155 0.57 49.0 3.91e-01 92.0% 69.7%
4461240 106.1.1.1 ↗ alpha arrays › Globin-like › Globin-like › Globin-like › Globin 0.57 38.0 3.34e-01 70.5% 76.6%
3684672 621.1.1.3 ↗ alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Sey1_3HB 0.57 39.0 3.77e-01 71.6% 63.0%
3543797 633.23.1.22 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › MARVEL 0.55 48.0 3.76e-01 100.0% 60.5%
3716964 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.55 36.0 3.52e-01 71.6% 61.1%
4950546 101.1.6.41 ↗ alpha arrays › HTH › HTH › TrpR › DUF4096 0.53 38.0 3.79e-01 75.0% 97.8%
3389507 3817.1.1.1 ↗ alpha bundles › Peroxisomal biogenesis factor 19 › Peroxisomal biogenesis factor 19 › Peroxisomal biogenesis factor 19 › Pex19 0.53 42.0 3.80e-01 85.2% 77.5%
4663875 142.1.1.0 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.53 42.0 3.11e-01 87.5% 56.2%
3411600 143.2.1.1 ↗ alpha arrays › PABP domain-like › Ribosomal protein L20 › Ribosomal protein L20 › Ribosomal_L20 0.51 44.0 3.91e-01 98.9% 64.6%
3677854 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.51 41.0 2.57e-01 90.9% 15.5%