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NC_048113.1__YP_009816939.1__HOU68_gp07__00007

Bact-Vir

NC_048113.1__YP_009816939.1__HOU68_gp07__00007

Identity

Accession:
NC_048113 ↗
Kingdom:
phage

Quality

88.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Murrayvirus› Salmonella_phage_Lumpael

TaxID: 2488859

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 medium residues 1-52
PDB
Domain cluster: representative
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1l1lA01 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.75 58.0 3.30e-01 82.7% 11.9%
1d5aA03 3.90.1600.10 Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain 0.65 56.0 3.88e-01 94.2% 68.3%
4bfrB02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.60 44.0 3.33e-01 78.8% 77.3%
1k8iA01 3.10.320.10 Alpha Beta › Roll › Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1 › Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1 0.56 41.0 3.61e-01 76.9% 72.7%
4dqnA01 3.30.470.10 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › Aminotransferase class 4, branched-chain amino acid transferase, N-terminal domain 0.52 40.0 2.83e-01 80.8% 50.6%
4bmjA00 6.20.250.40 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.51 38.0 3.76e-01 92.3% 96.8%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3307577 375.1.1.222 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PF29994 0.84 52.0 6.24e-01 71.2% 94.3%
3450140 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.82 52.0 6.17e-01 73.1% 97.1%
3257678 5000.4.1.0 ↗ alpha arrays › Toxins' membrane translocation domains › delta-Endotoxin (insectocide), N-terminal domain › delta-Endotoxin (insectocide), N-terminal domain 0.72 62.0 3.81e-01 92.3% 62.5%
3404684 10.12.1.84 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › VKGC_lumenal_dom 0.72 39.0 2.57e-01 75.0% 12.9%
3193128 4957.1.1.0 ↗ a+b complex topology › helical domain in yeast RNA-polymerases › third helical domain in yeast RNA-polymerase II beta-prime subunit › third helical domain in yeast RNA-polymerase II beta-prime subunit 0.68 54.0 3.81e-01 86.5% 49.0%
3693975 186.2.1.1 ↗ alpha arrays › lambda integrase-N-like › VEFS domain › VEFS domain › VEFS-Box 0.59 47.0 3.60e-01 92.3% 36.2%
3715868 375.10.1.2 ↗ few secondary structure elements › Rubredoxin-like › Zinc finger domain of DNA polymerase-alpha › Zinc finger domain of DNA polymerase-alpha › zf-DPOE 0.52 39.0 3.77e-01 82.7% 71.7%
D2 medium residues 53-125
PDB
Domain cluster: rep: MK095605.1__AZS06276.1__MED16_gp36__00036__D11-64
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3tm8B00 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.56 43.0 2.87e-01 100.0% 20.2%
3jb9H00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.55 41.0 4.09e-01 80.8% 100.0%
2cveA02 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 35.0 3.68e-01 100.0% 72.7%
1x6oA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 35.0 3.49e-01 82.2% 62.0%
2hq7B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.53 41.0 3.37e-01 86.3% 52.8%
5bncB01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.53 40.0 3.28e-01 84.9% 47.7%
1f08B00 3.40.1310.10 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.52 36.0 2.97e-01 100.0% 37.2%
1gsaA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.51 39.0 4.11e-01 90.4% 96.9%
1u8sA02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.51 37.0 3.63e-01 100.0% 69.0%
2ipiA01 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.51 42.0 3.12e-01 98.6% 53.7%
5e44A01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 41.0 3.39e-01 98.6% 46.6%
2pqqA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 41.0 3.37e-01 97.3% 46.3%
3fx3B01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 41.0 3.46e-01 97.3% 50.0%
1kq1H00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.50 37.0 3.87e-01 82.2% 93.9%
ECOD (21)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3461464 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.59 50.0 3.85e-01 98.6% 81.7%
3706101 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 42.0 3.07e-01 78.1% 42.4%
4610512 4261.1.1.1 ↗ a+b two layers › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA_C 0.56 42.0 4.10e-01 100.0% 72.9%
4218044 4261.1.1.1 ↗ a+b two layers › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA_C 0.56 42.0 4.03e-01 100.0% 70.0%
4938929 4261.1.1.1 ↗ a+b two layers › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA_C 0.55 42.0 3.98e-01 100.0% 70.0%
5046498 219.1.1.51 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C39_2 0.55 45.0 3.65e-01 100.0% 86.1%
5301 304.24.1.2 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › DUF1949 0.54 35.0 3.64e-01 100.0% 71.6%
3505097 4.1.1.19 ↗ beta barrels › SH3 › SH3 › SH3 › LSM 0.54 40.0 3.85e-01 79.5% 90.6%
4983443 4261.1.1.1 ↗ a+b two layers › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA_C 0.54 41.0 3.89e-01 100.0% 68.9%
3266400 219.1.1.112 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH, UCH_1 0.54 45.0 2.78e-01 94.5% 45.1%
3700507 2004.1.1.427 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › RHSP, RHS_N 0.53 37.0 2.42e-01 72.6% 19.1%
3397468 11.1.1.822 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF229 0.53 43.0 3.86e-01 90.4% 83.8%
4934302 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.53 37.0 3.62e-01 100.0% 67.5%
5027020 4261.1.1.1 ↗ a+b two layers › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA_C 0.53 39.0 4.00e-01 98.6% 87.1%
4963255 4261.1.1.0 ↗ a+b two layers › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA C-terminal domain-like 0.53 41.0 4.19e-01 100.0% 92.9%
3486476 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 42.0 3.79e-01 94.5% 88.2%
2670369 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.52 42.0 3.57e-01 98.6% 52.7%
4978626 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.51 35.0 3.64e-01 100.0% 77.1%
4165803 206.1.3.11 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › GSH-S_ATP 0.51 42.0 3.18e-01 95.9% 73.3%
3488301 11.1.1.97 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.51 42.0 3.74e-01 94.5% 88.2%
3797519 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.50 44.0 2.60e-01 97.3% 19.0%