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NC_028672.1__YP_009189106.1__ADU18_0251__00239

Bact-Vir

NC_028672.1__YP_009189106.1__ADU18_0251__00239

Identity

Accession:
NC_028672 ↗
Kingdom:
phage

Quality

87.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Certrevirus› Cronobacter_phage_PBES_02

TaxID: 1684115

Cluster

Singleton — not in a non-trivial cluster

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 2-69
PDB
Domain cluster: representative
CATH (22)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4llgM00 3.10.20.510 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNA polymerase inhibitor 0.70 41.0 4.64e-01 91.2% 78.0%
2wcyA01 3.30.60.30 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.62 37.0 3.63e-01 89.7% 53.3%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.58 39.0 3.98e-01 75.0% 72.7%
1rm6A01 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.57 35.0 2.98e-01 94.1% 34.5%
1yd0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.57 46.0 4.27e-01 92.6% 82.0%
5ybwA02 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 45.0 4.07e-01 91.2% 72.4%
1kk1A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.56 42.0 3.16e-01 85.3% 94.9%
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.56 47.0 4.35e-01 100.0% 98.9%
1bw3A00 2.40.40.10 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › RlpA-like domain 0.56 39.0 3.25e-01 75.0% 49.6%
3weeA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.55 41.0 3.04e-01 79.4% 84.7%
2ed8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 38.0 3.62e-01 80.9% 58.1%
6c80A03 3.40.462.10 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › FAD-linked oxidases, C-terminal domain 0.55 47.0 3.36e-01 100.0% 84.0%
1vw4U00 3.30.1390.20 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L30; Chain: A, › Ribosomal protein L30/L7 0.54 44.0 4.14e-01 89.7% 82.9%
3qvnA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.53 43.0 3.62e-01 88.2% 64.1%
2ebmA00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.53 40.0 3.29e-01 82.4% 62.5%
2vgnA02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.52 41.0 3.51e-01 92.6% 95.3%
2yuxA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 37.0 3.25e-01 85.3% 49.1%
1xc3A01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.51 39.0 3.45e-01 83.8% 94.2%
4ecnA02 2.60.40.3540 Mainly Beta › Sandwich › Immunoglobulin-like › Domain of unknown function DUF4458 0.51 40.0 3.33e-01 85.3% 54.1%
3fbxA00 3.60.60.30 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › 0.51 43.0 2.55e-01 92.6% 27.3%
3w2zA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.51 40.0 3.01e-01 88.2% 71.9%
3puaA01 2.60.120.650 Mainly Beta › Sandwich › Jelly Rolls › Cupin 0.50 41.0 2.71e-01 89.7% 72.0%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4943252 301.1.1.2 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.67 50.0 3.88e-01 79.4% 41.4%
3512155 560.1.1.3 ↗ few secondary structure elements › H-NS histone-like proteins, C-terminal domain › H-NS histone-like proteins, C-terminal domain › H-NS histone-like proteins, C-terminal domain › DUF5648 0.66 46.0 4.13e-01 73.5% 95.8%
4927501 2003.1.5.19 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › TRM 0.62 43.0 2.68e-01 72.1% 53.3%
3226989 375.1.3.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 0.62 47.0 5.08e-01 97.1% 100.0%
4969409 821.1.1.14 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › DUF2797 0.61 50.0 4.35e-01 97.1% 58.3%
4958689 821.1.1.14 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › DUF2797 0.60 45.0 4.72e-01 100.0% 95.0%
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 0.60 37.0 4.37e-01 73.5% 95.6%
5077070 375.1.3.1 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › DUF1922 0.60 47.0 5.00e-01 97.1% 98.3%
4507405 375.1.1.128 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Zn_ribbon_SprT 0.59 37.0 4.39e-01 73.5% 95.6%
3637444 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.59 48.0 3.30e-01 91.2% 62.0%
3251948 375.1.3.2 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › MRNIP 0.59 46.0 4.83e-01 100.0% 98.3%
3938644 219.1.1.37 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C97 0.58 50.0 4.05e-01 100.0% 90.0%
5049794 301.1.1.2 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.58 45.0 3.55e-01 83.8% 42.8%
3489248 375.1.1.45 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Mcm10 0.58 34.0 4.16e-01 86.8% 100.0%
5039344 821.1.1.0 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.58 47.0 4.43e-01 100.0% 75.3%
3180145 2484.1.1.21 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › BcrAD_BadFG 0.57 43.0 2.96e-01 80.9% 90.2%
4929409 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 40.0 4.29e-01 95.6% 89.8%
3701914 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.55 42.0 3.80e-01 82.4% 78.9%
4929321 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 40.0 4.25e-01 97.1% 91.7%
3704579 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.53 40.0 3.12e-01 83.8% 78.8%
3236126 10.10.1.1 ↗ beta sandwiches › jelly-roll › Lipase/lipooxygenase domain (PLAT/LH2 domain) › Lipase/lipooxygenase domain (PLAT/LH2 domain) › PLAT 0.52 41.0 3.37e-01 85.3% 75.2%
3595803 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.52 40.0 4.28e-01 100.0% 96.6%
5049631 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 41.0 3.29e-01 88.2% 82.1%
3928042 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 37.0 3.39e-01 80.9% 64.0%
4567075 10.12.1.84 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › VKGC_lumenal_dom 0.51 39.0 2.64e-01 85.3% 63.5%