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NC_070839.1__YP_010656485.1__PP650_gp002__00002

Bact-Vir

NC_070839.1__YP_010656485.1__PP650_gp002__00002

Identity

Accession:
NC_070839 ↗
Kingdom:
phage

Quality

77.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Kyanoviridae› Shenzhenivirus› Synechococcus_phage_S-SZBM1

TaxID: 2926475

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 2-54
PDB
Domain cluster: representative
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1o8vA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.76 54.0 4.02e-01 75.5% 31.6%
2jkgA00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.71 60.0 4.30e-01 100.0% 37.0%
1ei5A03 2.40.128.50 Mainly Beta › Beta Barrel › Lipocalin › 0.69 61.0 4.91e-01 100.0% 85.3%
1ukfA00 3.90.70.20 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.68 58.0 4.04e-01 100.0% 28.7%
3ligA02 2.60.120.560 Mainly Beta › Sandwich › Jelly Rolls › Exo-inulinase; domain 1 0.67 53.0 3.70e-01 86.8% 72.2%
3azwA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.66 46.0 3.06e-01 75.5% 42.2%
5nslA02 2.60.120.560 Mainly Beta › Sandwich › Jelly Rolls › Exo-inulinase; domain 1 0.65 51.0 3.46e-01 86.8% 57.1%
2elbA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.65 47.0 3.97e-01 83.0% 43.1%
4e6xB00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.64 53.0 3.41e-01 100.0% 79.7%
3fm8D03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.64 48.0 3.90e-01 84.9% 50.9%
6j9eJ00 3.30.160.560 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.63 53.0 5.03e-01 100.0% 89.4%
2ltrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.62 50.0 4.12e-01 94.3% 54.3%
6hgcA01 3.40.532.10 Alpha Beta › 3-Layer(aba) Sandwich › Ubiquitin C-terminal Hydrolase UCH-l3 › Peptidase C12, ubiquitin carboxyl-terminal hydrolase 0.62 52.0 3.65e-01 100.0% 79.1%
2rcqA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.62 52.0 3.96e-01 100.0% 87.2%
4bwgD00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.59 45.0 3.72e-01 83.0% 50.5%
1z47A03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 42.0 4.30e-01 77.4% 87.8%
3ms6A00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.57 39.0 3.33e-01 71.7% 44.4%
3qijB03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 45.0 3.94e-01 92.5% 70.8%
1t0hA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.56 47.0 3.88e-01 94.3% 69.8%
2obdA01 3.15.20.10 Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 2 › Bactericidal permeability-increasing protein; domain 2 0.56 44.0 2.90e-01 94.3% 56.2%
1gutA00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.55 39.0 3.67e-01 77.4% 70.1%
1b9mA03 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.54 39.0 3.63e-01 79.2% 63.4%
3cjeA00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.54 40.0 3.01e-01 84.9% 62.7%
4aghA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.53 45.0 4.01e-01 100.0% 87.5%
1tluA00 3.60.90.10 Alpha Beta › 4-Layer Sandwich › S-adenosylmethionine decarboxylase › S-adenosylmethionine decarboxylase 0.52 45.0 3.51e-01 100.0% 80.3%
6fndA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.50 40.0 2.83e-01 90.6% 39.8%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3427234 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.81 66.0 4.20e-01 100.0% 19.2%
4466960 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.80 61.0 4.58e-01 83.0% 49.2%
5013176 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.75 65.0 5.86e-01 100.0% 77.3%
3602276 881.4.1.2 ↗ a+b three layers › Mog1p/PsbP-like › C-terminal domain in sigma-E factor regulatory protein rseB › C-terminal domain in sigma-E factor regulatory protein rseB › DUF4367 0.74 63.0 4.73e-01 100.0% 38.5%
5045719 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.74 56.0 4.25e-01 83.0% 35.5%
4945318 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.70 52.0 4.07e-01 81.1% 37.4%
3579362 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.69 58.0 4.71e-01 100.0% 53.6%
3841924 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.69 50.0 4.03e-01 79.2% 38.2%
5020831 881.4.1.2 ↗ a+b three layers › Mog1p/PsbP-like › C-terminal domain in sigma-E factor regulatory protein rseB › C-terminal domain in sigma-E factor regulatory protein rseB › DUF4367 0.69 55.0 4.30e-01 98.1% 39.2%
3578128 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.69 58.0 5.78e-01 98.1% 100.0%
3267291 5.1.3.17 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Arylsulfotrans 0.68 57.0 3.53e-01 98.1% 28.7%
5059099 241.2.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like 0.67 59.0 5.03e-01 100.0% 61.4%
3882657 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.67 49.0 3.99e-01 79.2% 40.0%
4974213 2484.1.1.77 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Terminase_6C 0.65 49.0 3.38e-01 83.0% 31.3%
3212468 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.65 55.0 4.60e-01 100.0% 55.0%
5041229 375.13.1.0 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain 0.64 53.0 5.18e-01 98.1% 95.0%
3266673 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.64 55.0 3.39e-01 100.0% 31.5%
4932331 331.1.1.1 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › TBP 0.64 43.0 3.66e-01 71.7% 42.1%
3704939 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 48.0 4.16e-01 86.8% 54.4%
4447175 375.13.1.1 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Toprim_C_rpt 0.63 51.0 4.85e-01 94.3% 100.0%
5048942 2484.1.1.39 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Fumble 0.63 45.0 3.27e-01 81.1% 72.6%
3796352 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.62 51.0 4.88e-01 100.0% 98.5%
3474858 719.1.1.1 ↗ beta barrels › XRCC4, N-terminal domain-like › XRCC4, N-terminal domain › XRCC4, N-terminal domain › XRCC4 0.61 53.0 4.32e-01 100.0% 78.1%
3940203 220.1.1.22 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › FERM_C 0.61 48.0 4.02e-01 90.6% 73.0%
3716107 2484.2.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Methylated DNA-protein cysteine methyltransferase domain › Methylated DNA-protein cysteine methyltransferase domain 0.60 43.0 4.13e-01 79.2% 69.7%
3594326 241.10.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › GAS2 domain › GAS2 domain 0.60 50.0 4.42e-01 96.2% 93.8%
3601907 5.1.1.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 4-bladed 0.59 49.0 3.46e-01 100.0% 44.6%
4938243 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.58 50.0 4.86e-01 100.0% 91.7%
5023580 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.58 44.0 4.23e-01 86.8% 70.8%
4023242 220.1.1.187 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › VPS13_C 0.58 49.0 3.85e-01 100.0% 51.2%
3798012 883.1.1.2 ↗ a+b complex topology › Aha1/BPI domain-like › Aha1/BPI domain-like › Aha1/BPI domain-like › LBP_BPI_CETP_C 0.58 44.0 2.97e-01 92.5% 53.3%
4373021 2.4.1.6 ↗ beta barrels › OB-fold › MOP-like › MOP-like › CysA_C_terminal 0.57 41.0 3.44e-01 75.5% 42.4%
119300 3153.1.1.1 ↗ a+b two layers › PipX › PipX › PipX › PipX 0.57 42.0 3.72e-01 86.8% 50.6%
3619334 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.56 42.0 3.71e-01 86.8% 67.8%
3220737 207.1.1.52 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FBA_2 0.56 43.0 2.85e-01 94.3% 18.6%
3248039 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 44.0 3.78e-01 100.0% 69.0%
4294910 4263.2.1.1 ↗ a+b two layers › TTHA1528-like › FtsH Periplasmic Domain › FtsH Periplasmic Domain › FtsH_ext 0.54 35.0 3.47e-01 75.5% 61.8%
1034330 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.54 40.0 3.01e-01 84.9% 62.7%