←Back to structures

OQ094961.1__WBF47901.1__SSP49_76__00076

Bact-Vir

OQ094961.1__WBF47901.1__SSP49_76__00076

Identity

Accession:
OQ094961 ↗
Kingdom:
phage

Quality

89.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Silviavirus› Staphylococcus_phage_SSP49

TaxID: 3017777

Cluster

View cluster (5 members)

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 4-52
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01541.31 best GIY-YIG 32.0 1.70e-07 98.0% 48.7%
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.80 70.0 5.74e-01 100.0% 55.4%
3o2iA00 3.30.70.2710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.66 50.0 4.18e-01 87.8% 57.0%
2hj1A00 3.10.20.280 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RnfH-like 0.64 49.0 4.29e-01 100.0% 54.5%
5bjuA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.64 45.0 2.78e-01 75.5% 67.2%
3t5tB01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.64 45.0 2.81e-01 75.5% 87.5%
3ifrB02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.61 47.0 3.09e-01 89.8% 58.7%
2iqcA00 1.25.40.490 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.59 41.0 2.87e-01 73.5% 36.4%
3i3lA02 3.30.390.160 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.59 47.0 3.56e-01 91.8% 85.6%
3p2aA01 2.30.30.380 Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24 0.59 40.0 4.30e-01 100.0% 100.0%
2b9dA01 3.30.160.330 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.58 40.0 4.30e-01 95.9% 94.9%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.57 44.0 3.59e-01 100.0% 44.7%
6kykA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.57 44.0 3.86e-01 100.0% 53.6%
5r0dB01 2.60.34.20 Mainly Beta › Sandwich › Substrate Binding Domain Of DNAk; Chain A, domain 1 › 0.57 40.0 2.92e-01 93.9% 25.9%
3t91B00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.57 39.0 2.57e-01 73.5% 31.5%
1z1bA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.57 39.0 3.83e-01 75.5% 73.7%
2k4vA00 3.30.160.370 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Domain of unknown function DUF5064 0.56 42.0 3.20e-01 100.0% 32.8%
3zq5A03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.56 41.0 3.02e-01 100.0% 26.8%
3rosA01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.56 43.0 2.77e-01 85.7% 66.8%
2dulA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 47.0 2.93e-01 100.0% 30.8%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.55 43.0 3.95e-01 100.0% 63.2%
7wq5A01 3.30.730.10 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › AP2/ERF domain 0.55 37.0 3.65e-01 100.0% 63.8%
1neiA00 3.30.160.220 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › YoaG 0.55 46.0 4.33e-01 95.9% 91.7%
8sppA01 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.55 43.0 2.68e-01 95.9% 35.5%
4qmfB01 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.55 38.0 3.32e-01 75.5% 91.5%
4arvA02 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.54 45.0 3.38e-01 93.9% 63.5%
1jyoE00 4.10.1330.10 Few Secondary Structures › Irregular › non globular Virulence effector SptP fold › non globular Virulence effector SptP domain 0.54 36.0 2.87e-01 85.7% 31.4%
3g2bA00 1.10.10.1150 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Coenzyme PQQ synthesis protein D (PqqD) 0.54 39.0 3.25e-01 77.6% 46.7%
3io5A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 40.0 2.65e-01 89.8% 50.2%
4nnaA01 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.53 45.0 2.74e-01 95.9% 94.0%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.53 45.0 3.19e-01 100.0% 41.9%
2z5bA00 3.30.230.100 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.52 42.0 3.20e-01 93.9% 44.1%
1vwxr00 3.30.390.110 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.51 39.0 3.05e-01 89.8% 62.4%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.51 42.0 2.81e-01 100.0% 41.4%
2cfaA01 3.30.1360.170 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.51 40.0 3.05e-01 95.9% 47.9%
1ez0B01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.50 41.0 2.53e-01 89.8% 57.1%
2y8yA02 3.30.70.1210 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Crispr-associated protein; domain 2 0.50 37.0 2.95e-01 83.7% 40.0%
2pe4A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.50 39.0 2.35e-01 87.8% 67.9%
4lvnP00 3.30.70.2380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 38.0 3.21e-01 81.6% 90.1%
ECOD (32)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3496147 821.1.1.0 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.85 76.0 5.93e-01 100.0% 62.0%
3583377 386.1.1.1 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.69 47.0 4.35e-01 93.9% 55.4%
3970701 560.1.1.0 ↗ 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 0.67 43.0 4.61e-01 100.0% 80.0%
3933447 2484.1.1.9 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.65 49.0 3.89e-01 100.0% 39.0%
3106025 4967.1.1.11 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › GIIM 0.65 44.0 3.14e-01 71.4% 75.0%
3253565 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.65 43.0 4.82e-01 87.8% 97.1%
4153200 4967.1.1.0 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases 0.65 45.0 3.12e-01 71.4% 71.3%
3918540 386.1.1.281 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › PF27082 0.63 47.0 5.09e-01 100.0% 100.0%
3472650 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.61 51.0 3.86e-01 100.0% 47.7%
5010744 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.59 50.0 4.60e-01 100.0% 93.8%
3710894 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.58 44.0 4.27e-01 100.0% 74.1%
3274193 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.56 47.0 2.60e-01 95.9% 17.2%
5018200 2004.1.1.220 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SWI2_SNF2 0.56 41.0 2.36e-01 79.6% 84.1%
3596174 3075.1.1.0 ↗ a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA 0.56 39.0 3.63e-01 100.0% 55.7%
3325733 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.55 38.0 3.84e-01 100.0% 72.0%
4046039 318.1.1.1 ↗ a+b two layers › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal_L6 0.55 39.0 3.25e-01 75.5% 50.6%
4394562 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.55 45.0 2.62e-01 91.8% 15.0%
3208973 4099.1.1.4 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › CENP-O 0.54 45.0 3.48e-01 95.9% 64.0%
3282063 331.3.1.11 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc2 0.54 42.0 3.39e-01 100.0% 65.6%
3238459 616.1.1.0 ↗ alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain 0.54 36.0 3.45e-01 100.0% 55.4%
2890419 304.139.1.1 ↗ a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › DevR 0.53 40.0 2.93e-01 81.6% 81.8%
4995783 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.53 36.0 3.79e-01 100.0% 90.0%
3788481 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 42.0 2.55e-01 100.0% 32.3%
4940345 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.53 42.0 3.21e-01 95.9% 73.3%
3206044 3380.1.1.0 ↗ a+b duplicates or obligate multimers › Dimerization domain of Lsr2 › Dimerization domain of Lsr2 › Dimerization domain of Lsr2 0.52 35.0 3.29e-01 98.0% 53.8%
3741335 109.4.1.338 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RIC1 0.52 40.0 2.65e-01 100.0% 42.0%
3270014 5.1.4.223 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_RIC1_2nd 0.52 38.0 2.32e-01 83.7% 14.0%
3415649 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.52 41.0 2.67e-01 83.7% 78.4%
3971169 102.1.1.24 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_2 0.52 40.0 3.24e-01 98.0% 46.7%
3360654 376.1.3.57 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger › zf_ULT1 0.52 40.0 3.95e-01 89.8% 87.3%
3879591 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.51 42.0 2.60e-01 93.9% 60.3%
3683470 2002.1.1.30 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_18 0.51 41.0 2.72e-01 95.9% 26.1%
D2 medium residues 61-99
PDB
Domain cluster: rep: ON287372.1__UQT03183.1__TOTORO_03210__00320__D245-285
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5i41B00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.79 56.0 4.61e-01 82.1% 43.3%
3oouA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.72 62.0 5.55e-01 97.4% 76.4%
3kjxD01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.72 53.0 4.54e-01 79.5% 75.4%
3psfA05 1.10.10.2740 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Spt6, Death-like domain 0.67 48.0 3.66e-01 79.5% 71.0%
2mtzA01 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.66 54.0 5.00e-01 92.3% 84.0%
1biaA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.66 53.0 4.67e-01 97.4% 78.1%
2mkxA00 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.65 52.0 4.82e-01 92.3% 82.4%
3gziA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.60 49.0 3.18e-01 97.4% 22.2%
1e0gA00 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.56 41.0 4.03e-01 89.7% 87.5%
1jjoC01 3.30.497.10 Alpha Beta › 2-Layer Sandwich › Antithrombin; Chain I, domain 2 › Antithrombin, subunit I, domain 2 0.56 42.0 2.96e-01 89.7% 91.3%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4022446 101.15.1.0 ↗ alpha arrays › HTH › LysM domain › LysM domain 0.72 59.0 5.24e-01 89.7% 89.1%
3611431 101.15.1.0 ↗ alpha arrays › HTH › LysM domain › LysM domain 0.70 57.0 4.89e-01 89.7% 83.3%
3690558 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.70 61.0 5.36e-01 100.0% 91.7%
3976327 101.1.9.41 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › ORF6N 0.69 54.0 5.19e-01 84.6% 80.0%
3331840 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.69 56.0 5.03e-01 89.7% 80.0%
2074716 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.68 56.0 5.11e-01 92.3% 86.3%
3375922 101.15.1.0 ↗ alpha arrays › HTH › LysM domain › LysM domain 0.65 52.0 3.84e-01 92.3% 38.1%