←Back to structures

MW117965.1__QPB08015.1__X__00178

Bact-Vir

MW117965.1__QPB08015.1__X__00178

Identity

Accession:
MW117965 ↗
Kingdom:
phage

Quality

70.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Kyanoviridae› Yellowseavirus› Synechococcus_phage_S-H38

TaxID: 2783673

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 170-254
PDB
Domain cluster: representative
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2vgnA02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.66 57.0 5.02e-01 97.6% 96.9%
3wxmB02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.64 56.0 5.05e-01 100.0% 97.5%
3obwA02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.64 57.0 5.13e-01 100.0% 95.8%
3kksB00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.63 55.0 4.61e-01 98.8% 58.6%
3bexA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.63 51.0 4.69e-01 88.2% 99.1%
2qi2A02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.63 55.0 5.06e-01 100.0% 94.7%
8dkrB01 3.30.420.240 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.63 54.0 4.03e-01 97.6% 90.4%
5jicA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.62 50.0 3.95e-01 88.2% 87.9%
2g7zA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.62 52.0 4.69e-01 94.1% 85.0%
4af1A02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.62 54.0 4.78e-01 98.8% 97.6%
4m7xA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.61 54.0 5.28e-01 100.0% 94.5%
3mdqA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.59 51.0 4.63e-01 100.0% 92.7%
4qt4A00 3.40.50.1470 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidyl-tRNA hydrolase 0.59 50.0 4.03e-01 100.0% 92.6%
1p90A00 3.30.420.130 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Dinitrogenase iron-molybdenum cofactor biosynthesis domain 0.58 51.0 4.58e-01 100.0% 83.7%
2dt8A02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.57 47.0 4.18e-01 95.3% 86.2%
2yztA00 3.30.160.250 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.56 37.0 4.10e-01 90.6% 87.9%
1pzxA03 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.55 46.0 4.16e-01 95.3% 82.0%
1vq8Q00 2.30.30.70 Mainly Beta › Roll › SH3 type barrels. › Ribosomal protein L21 0.55 27.0 2.65e-01 81.2% 37.9%
3hi0A02 3.30.420.150 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Exopolyphosphatase. Domain 2 0.55 45.0 3.65e-01 94.1% 85.2%
8gtyA02 3.30.420.150 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Exopolyphosphatase. Domain 2 0.55 46.0 3.73e-01 94.1% 86.1%
1mgpA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.55 47.0 4.25e-01 97.6% 85.1%
2a6aB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.55 47.0 4.27e-01 100.0% 90.8%
1efpB00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.54 45.0 3.39e-01 98.8% 75.6%
2y8tA03 2.10.70.70 Mainly Beta › Ribbon › Complement Module; domain 1 › 0.52 25.0 3.02e-01 72.9% 67.3%
3cxgA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.52 41.0 3.66e-01 87.1% 90.2%
3i2nA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 45.0 3.05e-01 100.0% 90.7%
1mdaH00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 44.0 2.98e-01 100.0% 84.5%
1txdA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 35.0 3.17e-01 71.8% 64.5%
2egcA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.51 27.0 2.88e-01 96.5% 54.7%
2wr7C01 3.90.20.10 Alpha Beta › Alpha-Beta Complex › Hemagglutinin Ectodomain; Chain B › 0.51 40.0 2.89e-01 85.9% 94.7%
3u12A00 2.30.29.180 Mainly Beta › Roll › PH-domain like › Ubiquitin carboxyl-terminal hydrolase 26/29/37, pleckstrin homology-like domain 0.51 37.0 3.47e-01 76.5% 76.0%
4agiA00 2.120.10.70 Mainly Beta › 6 Propeller › Neuraminidase › Fucose-specific lectin 0.50 42.0 2.85e-01 90.6% 45.5%
3ow8C00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.50 45.0 3.08e-01 100.0% 90.3%
ECOD (56)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4979608 2484.1.1.38 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › eRF1_2 0.67 60.0 5.30e-01 100.0% 98.4%
3213706 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.67 57.0 4.26e-01 95.3% 57.3%
3508714 295.1.1.29 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › YjeJ 0.65 47.0 3.90e-01 77.6% 95.6%
5063197 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.64 57.0 5.26e-01 100.0% 96.4%
3671443 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.64 44.0 4.91e-01 81.2% 95.4%
5050973 2484.1.1.38 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › eRF1_2 0.63 56.0 4.94e-01 100.0% 97.6%
4538897 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.63 53.0 4.74e-01 95.3% 87.1%
4370556 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.63 53.0 4.66e-01 94.1% 85.2%
2516752 2.1.1.32 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › TIP49 0.63 33.0 3.89e-01 92.9% 74.1%
4038287 2484.1.1.40 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvX 0.62 55.0 4.75e-01 100.0% 97.0%
3294876 2484.1.1.106 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.62 55.0 4.24e-01 100.0% 85.1%
3331331 252.2.1.1 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › AP2 0.62 39.0 3.68e-01 80.0% 54.0%
4990438 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.61 53.0 4.75e-01 100.0% 93.6%
4970709 2484.1.1.342 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PF29288 0.61 51.0 4.20e-01 96.5% 64.7%
5048501 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.61 53.0 4.28e-01 97.6% 64.2%
4955184 2484.4.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like › Nitro_FeMo-Co 0.60 53.0 4.78e-01 100.0% 93.3%
4144736 2484.1.1.37 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.60 51.0 4.65e-01 95.3% 75.7%
4381669 2011.2.1.3 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like › Pept_tRNA_hydro 0.60 52.0 4.10e-01 100.0% 87.2%
4126985 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.60 50.0 4.54e-01 97.6% 87.9%
3827127 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.59 38.0 3.73e-01 80.0% 58.9%
4032797 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.59 51.0 4.49e-01 97.6% 86.8%
4936345 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.59 45.0 4.90e-01 84.7% 98.6%
4392478 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.59 50.0 4.82e-01 98.8% 82.0%
4349801 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.59 49.0 4.41e-01 97.6% 87.5%
3219961 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.59 49.0 4.31e-01 95.3% 91.9%
3238035 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.59 35.0 4.16e-01 94.1% 100.0%
4134161 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.59 49.0 4.27e-01 94.1% 85.9%
4104734 2011.2.1.3 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like › Pept_tRNA_hydro 0.59 50.0 4.05e-01 100.0% 97.8%
4376573 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.58 49.0 4.44e-01 97.6% 88.7%
3251228 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.58 42.0 3.63e-01 81.2% 46.2%
3969156 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.58 47.0 4.08e-01 94.1% 88.3%
4986962 2484.4.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like › Nitro_FeMo-Co 0.58 51.0 4.73e-01 100.0% 95.5%
4208967 2011.2.1.3 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like › Pept_tRNA_hydro 0.58 49.0 3.94e-01 100.0% 92.1%
5016422 2484.4.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like › Nitro_FeMo-Co 0.57 49.0 4.67e-01 100.0% 94.3%
4946414 301.13.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain 0.57 49.0 4.39e-01 97.6% 95.9%
2162577 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.56 46.0 4.13e-01 97.6% 85.1%
1933261 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.56 45.0 4.14e-01 94.1% 82.6%
1937542 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.56 47.0 4.18e-01 95.3% 83.3%
4944239 301.13.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain 0.56 46.0 4.13e-01 95.3% 86.2%
4944904 301.13.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain 0.56 45.0 4.02e-01 94.1% 83.7%
3962875 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.55 46.0 4.13e-01 97.6% 86.9%
4015745 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.55 39.0 2.55e-01 74.1% 25.0%
4944129 301.13.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain 0.55 46.0 4.12e-01 97.6% 88.5%
5014724 295.1.1.51 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › FtsQ_DivIB_C 0.55 45.0 4.33e-01 91.8% 100.0%
3990293 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.55 33.0 3.99e-01 87.1% 92.7%
4993340 2.1.1.15 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.55 33.0 3.21e-01 97.6% 51.0%
4944466 301.13.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain 0.54 45.0 4.08e-01 97.6% 90.4%
3222570 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.53 38.0 3.54e-01 78.8% 93.9%
4054258 2484.1.1.47 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › T2SSL 0.53 44.0 3.87e-01 98.8% 100.0%
4952930 2.21.1.0 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.52 31.0 3.16e-01 85.9% 58.8%
3458192 5.1.3.142 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Beta-prop_AT5G49610-like 0.51 44.0 3.06e-01 98.8% 99.0%
4407693 2004.1.1.525 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23, AAA_27, SbcC_Walker_B 0.51 44.0 3.00e-01 97.6% 90.4%
3392798 394.1.1.0 ↗ few secondary structure elements › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins 0.51 29.0 3.55e-01 77.6% 94.0%
3648067 2003.1.2.18 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.51 42.0 2.75e-01 100.0% 97.8%
3312598 2003.1.2.17 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Amino_oxidase 0.50 42.0 2.84e-01 100.0% 97.3%
3822451 101.33.1.1 ↗ alpha arrays › HTH › Replication foci-targeting sequence C-terminal domain › Replication foci-targeting sequence C-terminal domain › DNMT1-RFD 0.50 42.0 3.72e-01 95.3% 81.5%