←Back to structures

NC_047767.1__YP_009786219.1__HOR18_gp065__00065

Bact-Vir

NC_047767.1__YP_009786219.1__HOR18_gp065__00065

Identity

Accession:
NC_047767 ↗
Kingdom:
phage

Quality

74.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Sciuriunavirus› Staphylococcus_phage_vB_SscM-1

TaxID: 1868844

Cluster

View cluster (2 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 high residues 12-100
PDB
Domain cluster: rep: MZ573780.2__QYC50957.1__X__00057__D4-96
CATH (22)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2iz4A02 2.20.25.590 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.66 29.0 4.10e-01 82.0% 88.1%
3oe3C00 2.40.128.200 Mainly Beta › Beta Barrel › Lipocalin › C-type lysozyme inhibitor 0.61 38.0 3.88e-01 83.1% 63.6%
8hpoK01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.59 41.0 2.67e-01 71.9% 54.2%
4ci8A01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.59 43.0 2.93e-01 76.4% 61.5%
3d3sA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.59 33.0 2.78e-01 100.0% 30.2%
3fgbA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.59 51.0 3.42e-01 95.5% 99.7%
6yiiA01 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.59 45.0 3.34e-01 82.0% 99.1%
2dx0A00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.58 45.0 4.09e-01 82.0% 80.3%
1ri6A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.58 49.0 3.34e-01 93.3% 99.1%
5gtqA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.57 47.0 3.27e-01 91.0% 98.4%
3hfqA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.57 48.0 3.27e-01 94.4% 99.7%
2o18A00 3.10.520.10 Alpha Beta › Roll › T-fold › ApbE-like domains 0.56 42.0 2.97e-01 82.0% 94.5%
3g4eA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.55 45.0 3.15e-01 89.9% 97.6%
4c23B01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 40.0 3.00e-01 80.9% 76.9%
3dr2A00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.53 46.0 3.25e-01 100.0% 82.3%
2it9A00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.52 36.0 3.25e-01 83.1% 51.7%
2dx0B01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.52 34.0 3.62e-01 70.8% 78.7%
5o7oC01 3.30.310.280 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.52 40.0 3.60e-01 88.8% 59.2%
2ghsA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.52 42.0 2.97e-01 89.9% 96.3%
2aq5A01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 42.0 2.89e-01 93.3% 96.8%
3cpxA02 2.40.30.40 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 0.50 33.0 3.74e-01 94.4% 98.4%
6pzjA02 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.50 40.0 3.51e-01 91.0% 94.6%
ECOD (27)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4029623 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.62 45.0 2.78e-01 76.4% 41.1%
1318584 5.1.4.418 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, Lactonase 0.59 50.0 3.38e-01 93.3% 98.6%
143915 5.1.4.35 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.58 50.0 3.33e-01 94.4% 98.0%
4291202 5.1.4.35 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.58 50.0 3.30e-01 96.6% 93.7%
3943583 5.1.4.35 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.58 48.0 3.22e-01 93.3% 96.3%
3723616 5.1.4.35 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.56 47.0 3.05e-01 92.1% 99.3%
1688207 5.1.3.23 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › SGL 0.56 47.0 3.23e-01 91.0% 98.0%
3698170 5.1.3.8 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Arylesterase 0.56 51.0 3.30e-01 100.0% 83.0%
4039417 5.1.3.23 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › SGL 0.56 46.0 3.24e-01 91.0% 97.7%
3505455 5.1.4.156 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Ge1_WD40 0.56 46.0 2.99e-01 93.3% 87.3%
3472092 220.1.1.186 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_CAYP2 0.54 41.0 3.28e-01 78.7% 96.5%
3198667 5.1.4.221 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › SGL 0.54 44.0 3.00e-01 89.9% 92.5%
3967506 300.1.1.8 ↗ a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease › PLDc_2 0.53 44.0 3.27e-01 92.1% 79.2%
1933323 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.53 46.0 3.07e-01 96.6% 55.5%
3589527 5.1.4.35 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.53 47.0 3.21e-01 100.0% 98.8%
4392365 5.1.4.35 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.53 47.0 3.21e-01 100.0% 98.8%
3545942 5.1.11.11 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 9-bladed › WD40 0.53 44.0 2.98e-01 95.5% 40.5%
4371091 5.1.4.35 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.53 47.0 3.19e-01 100.0% 83.8%
4304850 5.1.4.35 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.53 47.0 3.19e-01 100.0% 99.1%
3275492 5.1.4.4 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40,DUF1899,WD40_4 0.52 42.0 2.78e-01 89.9% 79.0%
3565241 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.52 47.0 3.07e-01 100.0% 74.4%
3784224 220.1.1.70 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_5 0.52 40.0 3.53e-01 82.0% 79.2%
3215376 5.1.4.4 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40,DUF1899,WD40_4 0.51 42.0 2.81e-01 93.3% 81.7%
3281283 5.1.3.23 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › SGL 0.51 46.0 3.19e-01 100.0% 93.2%
4463778 227.1.1.7 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta_2 0.51 37.0 3.46e-01 79.8% 81.7%
3360888 5.1.4.298 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_ELP1_1st, Beta-prop_ELP1_2nd 0.50 36.0 2.34e-01 78.7% 68.1%
4000029 5.1.4.139 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40_2 0.50 40.0 2.81e-01 89.9% 66.5%
D2 high residues 107-181
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.69 55.0 5.41e-01 89.3% 100.0%
2hpuA01 3.30.70.2060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 45.0 4.85e-01 74.7% 100.0%
1qr4A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 46.0 4.38e-01 80.0% 66.7%
1rypC00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.60 49.0 3.52e-01 94.7% 84.8%
2ckaA01 3.40.5.120 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.58 34.0 3.97e-01 70.7% 87.8%
1u1sA00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.58 39.0 4.13e-01 76.0% 78.8%
1iyjB03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 39.0 3.21e-01 72.0% 40.8%
3wdhA01 2.60.40.2320 Mainly Beta › Sandwich › Immunoglobulin-like › 0.56 43.0 4.03e-01 89.3% 65.6%
1v9kA00 3.30.2350.10 Alpha Beta › 2-Layer Sandwich › Pseudouridine synthase › Pseudouridine synthase 0.56 38.0 2.82e-01 72.0% 59.0%
6m3aA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 40.0 4.23e-01 76.0% 87.9%
4d05A01 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.56 40.0 4.02e-01 80.0% 76.3%
4iajA00 3.30.1490.390 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 0.55 43.0 4.34e-01 88.0% 86.8%
2ln7A00 2.40.260.10 Mainly Beta › Beta Barrel › Sortase; Chain: A; › Sortase 0.53 43.0 3.56e-01 93.3% 62.6%
6mvfA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.53 40.0 3.37e-01 86.7% 84.5%
1a1rA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.52 38.0 3.70e-01 80.0% 81.2%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5077887 304.139.1.2 ↗ a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.78 65.0 4.62e-01 90.7% 99.1%
5059796 4326.1.1.0 ↗ a+b two layers › ERH-like › ERH-like › ERH-like 0.69 55.0 5.73e-01 88.0% 95.7%
3353030 822.1.1.2 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 0.65 47.0 4.27e-01 84.0% 57.0%
3915086 11.1.1.179 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 0.65 48.0 4.46e-01 78.7% 65.3%
3323677 822.1.1.2 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 0.64 47.0 5.04e-01 85.3% 96.7%
3229807 822.1.1.0 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain 0.64 50.0 4.99e-01 88.0% 83.7%
3486954 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 42.0 4.09e-01 80.0% 63.5%
5050775 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.59 45.0 4.04e-01 93.3% 56.4%
3839138 2004.1.1.36 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Dynamin_N 0.59 46.0 3.24e-01 88.0% 41.2%
4438042 11.1.1.365 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › ZP1_ZP4_Ig-like 0.57 43.0 3.62e-01 81.3% 76.2%
3478408 376.1.1.21 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_2 0.57 42.0 4.19e-01 80.0% 91.3%
4928815 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.56 37.0 3.90e-01 73.3% 76.9%
379802 822.1.1.1 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF 0.56 42.0 4.06e-01 82.7% 73.3%
4267139 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 37.0 4.07e-01 85.3% 93.0%
4460643 288.1.1.2 ↗ a+b four layers › CNF1/YfiH-like putative cysteine hydrolases › CNF1/YfiH-like putative cysteine hydrolases › CNF1/YfiH-like putative cysteine hydrolases › CheD 0.55 41.0 3.32e-01 85.3% 62.4%
2029587 1146.1.1.1 ↗ few secondary structure elements › CRISPR-associated endonuclease C2c1 C-terminal domain › CRISPR-associated endonuclease C2c1 C-terminal domain › CRISPR-associated endonuclease C2c1 C-terminal domain › C2c1_Nuc-II 0.53 38.0 3.38e-01 76.0% 82.3%
3919775 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 39.0 3.61e-01 78.7% 63.0%
3929550 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.52 38.0 3.89e-01 80.0% 98.6%
3954764 316.1.1.68 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › PF28438 0.52 35.0 3.53e-01 70.7% 90.7%
4295284 1077.1.1.1 ↗ few secondary structure elements › RelA zinc-finger domain › RelA zinc-finger domain › RelA zinc-finger domain › RelA_RIS 0.51 35.0 3.52e-01 70.7% 90.7%