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NC_030933.1__YP_009275891.1__BH792_gp135__00134

Bact-Vir

NC_030933.1__YP_009275891.1__BH792_gp135__00134

Identity

Accession:
NC_030933 ↗
Kingdom:
phage

Quality

82.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Silviavirus› Staphylococcus_phage_Stau2

TaxID: 1200862

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 3-61
PDB
Domain cluster: representative
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4bbrM00 1.10.472.170 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › 0.67 60.0 4.16e-01 100.0% 36.3%
2uz8A01 3.40.30.90 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › 0.67 48.0 4.97e-01 88.1% 85.2%
2n80A00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.66 42.0 3.67e-01 89.8% 40.4%
5xs2B02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.64 56.0 4.33e-01 98.3% 54.5%
3oc2A01 3.90.1310.10 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) 0.62 40.0 2.94e-01 93.2% 22.5%
2lyiA01 1.10.274.60 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Spidroin, repetitive domain 0.61 52.0 3.97e-01 98.3% 51.4%
6z4xA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.60 51.0 3.85e-01 100.0% 47.7%
3nwzB00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.59 45.0 3.33e-01 83.1% 70.2%
5xuhA00 3.90.470.20 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain 0.59 48.0 3.98e-01 100.0% 64.8%
3nz4B03 1.10.274.20 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Phenylalanine ammonia-lyase 1; domain 3 0.59 50.0 4.25e-01 100.0% 79.8%
5kiqA02 3.10.20.890 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.59 43.0 4.06e-01 88.1% 65.3%
6efaA02 3.10.20.890 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.58 45.0 4.19e-01 88.1% 70.5%
1xtfA00 3.90.1240.10 Alpha Beta › Alpha-Beta Complex › Zincin-like › "Metalloproteases (""zincins""), catalytic domain like" 0.57 49.0 2.99e-01 100.0% 34.4%
1f44A01 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.57 47.0 3.35e-01 96.6% 77.8%
3k8rA01 3.30.2020.40 Alpha Beta › 2-Layer Sandwich › NE0471 N-terminal domain-like › Uncharacterised protein PF10387, DUF2442 0.56 43.0 4.16e-01 86.4% 85.3%
2bwnB01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.55 49.0 3.59e-01 100.0% 58.5%
3jyyA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.55 39.0 3.07e-01 76.3% 70.1%
2rqaA00 2.170.150.30 Mainly Beta › Beta Complex › Metal Binding Protein, Guanine Nucleotide Exchange Factor; Chain A › RIG-I-like receptor, C-terminal regulatory domain 0.55 45.0 3.55e-01 94.9% 67.9%
3pnnA00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.55 46.0 2.95e-01 94.9% 28.9%
4eutB02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.55 45.0 3.22e-01 100.0% 31.4%
3hx8A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 44.0 3.43e-01 100.0% 41.4%
2hbpA00 2.30.30.700 Mainly Beta › Roll › SH3 type barrels. › SLA1 homology domain 1 0.54 34.0 3.37e-01 78.0% 57.6%
3ho6B00 3.40.50.11050 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › MARTX cysteine protease (CPD) domain 0.54 48.0 3.16e-01 100.0% 47.5%
5ajiB02 2.30.30.60 Mainly Beta › Roll › SH3 type barrels. › 0.53 34.0 3.65e-01 84.7% 76.0%
2hpiA03 1.10.10.1600 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Bacterial DNA polymerase III alpha subunit, thumb domain 0.53 43.0 4.07e-01 91.5% 78.9%
1aogA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 42.0 3.40e-01 89.8% 94.2%
2k57A00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.53 35.0 3.61e-01 78.0% 72.7%
6b4oA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 41.0 3.39e-01 89.8% 94.1%
2wfwB02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 36.0 3.53e-01 72.9% 85.1%
8c0zE01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.52 41.0 3.25e-01 89.8% 93.1%
3nqzA02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 41.0 3.74e-01 89.8% 91.7%
2qv8A00 3.55.40.10 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › minor pseudopilin epsh domain 0.52 40.0 3.09e-01 91.5% 35.4%
3h41A02 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.52 42.0 4.03e-01 89.8% 82.4%
4gnxA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 35.0 2.92e-01 71.2% 50.0%
2kjzA01 3.30.720.120 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.51 32.0 3.29e-01 79.7% 66.7%
3nbxX04 2.40.128.430 Mainly Beta › Beta Barrel › Lipocalin › 0.51 42.0 3.48e-01 91.5% 78.5%
4hb9A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 42.0 2.67e-01 100.0% 94.4%
2gu1A02 3.10.450.350 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.51 41.0 3.61e-01 98.3% 77.9%
3jq0A00 1.25.40.390 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.51 42.0 2.48e-01 91.5% 12.8%
3w15A01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.50 42.0 2.71e-01 100.0% 34.7%
1e1hA00 3.90.1240.10 Alpha Beta › Alpha-Beta Complex › Zincin-like › "Metalloproteases (""zincins""), catalytic domain like" 0.50 38.0 2.70e-01 89.8% 85.5%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3486377 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.68 48.0 4.40e-01 72.9% 74.7%
3388785 109.1.1.11 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › Arc1p_N_like 0.67 48.0 3.50e-01 89.8% 27.3%
3777646 101.1.10.13 ↗ alpha arrays › HTH › HTH › Cyclin-like › DUF3452 0.67 59.0 4.26e-01 98.3% 51.2%
3320259 10.12.1.16 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › 2OG-FeII_Oxy 0.65 57.0 3.90e-01 100.0% 66.2%
3808200 376.1.1.21 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_2 0.63 44.0 4.02e-01 74.6% 76.2%
3387923 1075.1.1.2 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › LptF_LptG 0.63 56.0 3.69e-01 100.0% 47.9%
3716174 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.63 38.0 3.07e-01 78.0% 32.7%
5018173 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.62 51.0 4.41e-01 94.9% 82.0%
3988005 211.1.1.0 ↗ a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.62 43.0 4.56e-01 88.1% 86.0%
3743231 376.1.1.21 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_2 0.61 51.0 4.75e-01 94.9% 98.7%
3704076 376.1.1.21 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_2 0.61 50.0 4.30e-01 93.2% 77.9%
2582292 6107.1.1.2 ↗ a+b two layers › a+b domain in platelet binding protein GspB › a+b domain in platelet binding protein GspB › a+b domain in platelet binding protein GspB › aRib 0.60 47.0 4.30e-01 88.1% 67.9%
2582300 6107.1.1.2 ↗ a+b two layers › a+b domain in platelet binding protein GspB › a+b domain in platelet binding protein GspB › a+b domain in platelet binding protein GspB › aRib 0.60 44.0 4.07e-01 88.1% 61.0%
3230015 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.58 46.0 2.80e-01 91.5% 23.5%
3279550 211.1.1.0 ↗ a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.58 35.0 4.01e-01 74.6% 100.0%
3823610 101.1.10.36 ↗ alpha arrays › HTH › HTH › Cyclin-like › MOM1 0.57 49.0 3.97e-01 100.0% 61.7%
4948250 4.1.1.301 ↗ beta barrels › SH3 › SH3 › SH3 › MJ1316 0.57 41.0 4.02e-01 89.8% 70.8%
3191963 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.55 43.0 2.60e-01 94.9% 25.0%
4147366 4.17.1.1 ↗ beta barrels › SH3 › GatD N-terminal domain-like › GatD N-terminal domain-like › GatD_N 0.55 36.0 3.87e-01 83.1% 81.2%
3188644 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.55 47.0 2.78e-01 94.9% 23.0%
5051148 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.54 37.0 3.71e-01 72.9% 96.7%
3393324 2.6.1.0 ↗ beta barrels › OB-fold › Staphylococcal nuclease › Staphylococcal nuclease 0.54 42.0 3.68e-01 94.9% 80.0%
3272418 2006.1.2.3 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › DHH phosphoesterases › CDC45 0.53 45.0 2.81e-01 93.2% 52.3%
3601162 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.52 39.0 3.82e-01 93.2% 73.8%
4147290 4.1.1.364 ↗ beta barrels › SH3 › SH3 › SH3 › GatD_N 0.52 38.0 3.73e-01 89.8% 70.8%
4038412 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.52 31.0 3.08e-01 76.3% 52.3%
3708055 4.1.1.13 ↗ beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd 0.52 38.0 3.78e-01 93.2% 73.8%
5037305 101.25.1.1 ↗ alpha arrays › HTH › CofE insertion domain › CofE insertion domain › F420_ligase 0.51 44.0 3.95e-01 98.3% 76.5%
3989898 4.1.1.13 ↗ beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd 0.51 37.0 3.68e-01 93.2% 72.3%
3592356 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.51 42.0 3.89e-01 100.0% 72.5%
4400642 4.1.1.257 ↗ beta barrels › SH3 › SH3 › SH3 › Flag1_repress 0.50 39.0 3.52e-01 91.5% 60.0%
D2 high residues 65-132
PDB
Domain cluster: rep: KY779848.1__ARQ95769.1__qdsa001_11__00011__D26-82