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LC680885.1__BDE75777.1__X__00239

Bact-Vir

LC680885.1__BDE75777.1__X__00239

Identity

Accession:
LC680885 ↗
Kingdom:
phage

Quality

88.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Staphylococcus_phage_S6

TaxID: 2913378

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 7-78
PDB
Domain cluster: representative
CATH (50)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7lt2A01 3.30.460.90 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › 0.77 61.0 4.13e-01 84.7% 25.7%
1w1hD00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.70 52.0 4.20e-01 79.2% 78.1%
3zfnA02 2.30.140.40 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Pestivirus Npro endopeptidase C53, interaction domain 0.66 38.0 4.22e-01 72.2% 71.9%
1jyaB00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.65 57.0 4.85e-01 100.0% 88.4%
2azpA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.64 40.0 3.06e-01 86.1% 28.0%
5m8cB01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.64 49.0 3.14e-01 81.9% 35.5%
4j0wA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.63 46.0 3.01e-01 79.2% 35.2%
3wa5B00 2.60.120.1690 Mainly Beta › Sandwich › Jelly Rolls › 0.62 44.0 3.68e-01 75.0% 49.2%
2cnxA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.62 55.0 3.62e-01 100.0% 95.1%
5ov3B01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.61 51.0 3.34e-01 90.3% 97.7%
5h1kA02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.61 52.0 3.37e-01 95.8% 94.8%
1d4tA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.61 51.0 4.50e-01 91.7% 83.7%
6jhpA01 2.70.98.60 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › alpha-galactosidase from lactobacil brevis 0.61 46.0 3.09e-01 81.9% 95.6%
3ednA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.61 39.0 3.22e-01 84.7% 35.8%
4nsxA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.60 48.0 3.12e-01 86.1% 74.7%
1erjB00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.60 54.0 3.46e-01 100.0% 82.5%
1a87A01 3.30.1120.60 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › Colicin 0.60 47.0 4.28e-01 86.1% 92.8%
3cnwA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.59 48.0 3.97e-01 93.1% 82.3%
2ynoA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.59 49.0 3.26e-01 91.7% 80.9%
1gxrA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.59 50.0 3.25e-01 95.8% 83.9%
1i3zA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.59 48.0 4.31e-01 91.7% 83.5%
3gkeA01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.58 49.0 4.06e-01 94.4% 76.2%
4h5iB00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.58 49.0 3.20e-01 95.8% 94.5%
3jb9L00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.57 46.0 3.13e-01 90.3% 81.6%
2zylA01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.57 49.0 3.97e-01 94.4% 73.3%
4cvbA00 2.140.10.10 Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Quinoprotein alcohol dehydrogenase-like superfamily 0.57 50.0 2.98e-01 100.0% 89.5%
4ba0A01 2.60.40.1760 Mainly Beta › Sandwich › Immunoglobulin-like › glycosyl hydrolase (family 31) 0.57 50.0 3.68e-01 100.0% 99.5%
6m90A02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.57 45.0 2.99e-01 86.1% 77.6%
7apkF01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 50.0 3.24e-01 100.0% 94.8%
7ylsB01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.56 42.0 3.67e-01 80.6% 96.3%
5mu3B00 3.40.50.12050 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 48.0 3.76e-01 100.0% 47.9%
8dc1A01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.55 48.0 3.36e-01 98.6% 98.0%
3hr8A02 3.30.250.10 Alpha Beta › 2-Layer Sandwich › Rec A Protein; domain 2 › RecA protein, C-terminal domain 0.55 40.0 4.00e-01 98.6% 74.7%
7q04F01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.55 42.0 3.64e-01 80.6% 96.3%
4cc9A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.55 47.0 3.14e-01 95.8% 92.5%
4i8oA01 3.30.310.240 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Bacterial toxin RNase RnlA/LsoA, N-terminal domain 0.54 40.0 3.85e-01 83.3% 91.0%
1w0pA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.54 43.0 3.29e-01 88.9% 57.1%
4fdtB00 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.54 41.0 2.60e-01 83.3% 29.0%
2q18X01 3.10.330.40 Alpha Beta › Roll › Vcp-like ATPase; Chain A, domain 2 › 0.53 37.0 3.81e-01 73.6% 92.9%
3vcaA02 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.53 44.0 3.80e-01 94.4% 86.6%
4lg8A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 41.0 2.82e-01 90.3% 49.4%
2dk7A00 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.53 35.0 3.54e-01 72.2% 67.1%
2gu1A02 3.10.450.350 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 36.0 3.27e-01 72.2% 73.1%
4tpsA00 3.30.310.250 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Sporulation inhibitor of replication protein SirA 0.52 45.0 3.63e-01 97.2% 60.0%
2jh3A03 3.30.1360.190 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.52 41.0 3.63e-01 90.3% 82.1%
3qxyA01 3.90.1410.10 Alpha Beta › Alpha-Beta Complex › set domain protein methyltransferase, domain 1 › set domain protein methyltransferase, domain 1 0.51 35.0 2.50e-01 73.6% 93.7%
7wffb01 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.51 42.0 2.88e-01 97.2% 40.1%
3ejxA02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.50 40.0 3.36e-01 94.4% 96.6%
2ymsB00 2.40.10.480 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.50 43.0 4.31e-01 97.2% 91.9%
2m7oA00 3.10.450.400 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Uncharacterised protein PF15513, DUF4651 0.50 37.0 3.78e-01 100.0% 84.3%
ECOD (57)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4988150 241.1.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone 0.71 62.0 5.45e-01 97.2% 90.5%
3712069 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.68 51.0 3.26e-01 79.2% 33.6%
3186994 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.68 51.0 3.10e-01 79.2% 30.1%
3577993 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.68 51.0 3.50e-01 79.2% 52.1%
3651128 5.1.4.334 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, Beta-prop_IFT140_1st 0.68 50.0 2.81e-01 77.8% 14.7%
3223576 5.1.4.31 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lgl_C 0.67 56.0 3.39e-01 91.7% 94.7%
3785788 5.1.4.31 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lgl_C 0.67 55.0 3.26e-01 87.5% 88.6%
76239 241.1.1.3 ↗ a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone › CesT 0.67 56.0 4.87e-01 95.8% 91.4%
3316283 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.66 55.0 3.35e-01 91.7% 91.1%
3832420 5.1.4.414 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, Lgl_C 0.65 55.0 3.35e-01 91.7% 87.7%
3893163 5.1.2.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › WD40 0.65 49.0 3.94e-01 79.2% 81.5%
3170675 1013.1.1.0 ↗ beta duplicates or obligate multimers › WD repeat-containing protein 48 ancillary domain › WD repeat-containing protein 48 ancillary domain › WD repeat-containing protein 48 ancillary domain 0.65 43.0 3.11e-01 73.6% 24.5%
3924601 5.1.5.18 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › Vps16_N 0.65 49.0 3.16e-01 80.6% 49.2%
3884512 5.1.5.182 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › Lgl_C 0.64 54.0 3.32e-01 91.7% 97.4%
3379658 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.64 48.0 3.01e-01 79.2% 29.6%
3253837 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.64 48.0 3.06e-01 79.2% 34.7%
3774251 5.1.4.31 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lgl_C 0.64 53.0 3.20e-01 91.7% 88.5%
3656952 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 51.0 4.33e-01 86.1% 72.2%
3463588 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.63 46.0 2.97e-01 77.8% 35.8%
4012683 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.63 47.0 3.00e-01 79.2% 47.9%
3254426 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.62 45.0 3.71e-01 77.8% 68.9%
3974425 9.4.1.0 ↗ beta barrels › Lipocalins/Streptavidin › D-aminopeptidase, middle and C-terminal domains › D-aminopeptidase, middle and C-terminal domains 0.62 52.0 4.78e-01 94.4% 94.7%
3272565 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.62 53.0 3.32e-01 95.8% 95.4%
3352593 5.1.10.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 12-bladed 0.61 42.0 4.08e-01 70.8% 71.2%
3259509 5.1.4.6 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40,ANAPC4_WD40 0.61 45.0 2.97e-01 79.2% 34.0%
2081270 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.61 45.0 2.92e-01 79.2% 32.2%
4998148 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 38.0 4.26e-01 91.7% 85.5%
3833799 5.1.4.266 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, Beta-prop_IFT122_1st 0.60 53.0 3.44e-01 100.0% 85.5%
3622711 5.1.5.76 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40, Beta-prop_NOL10_N 0.59 44.0 2.89e-01 79.2% 31.6%
3828029 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.59 53.0 3.41e-01 100.0% 83.1%
3473527 5.1.4.259 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, ANAPC4_WD40, WD40_CDC20-Fz 0.59 50.0 3.07e-01 95.8% 85.5%
3543794 6.1.1.1 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › FGF 0.59 48.0 3.63e-01 87.5% 81.2%
4024093 5.1.4.259 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, ANAPC4_WD40, WD40_CDC20-Fz 0.59 50.0 3.24e-01 95.8% 85.0%
3406501 5.1.5.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40 0.59 51.0 2.92e-01 95.8% 39.3%
3378955 5.1.4.259 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, ANAPC4_WD40, WD40_CDC20-Fz 0.59 52.0 3.28e-01 100.0% 74.9%
3572323 5.1.4.6 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40,ANAPC4_WD40 0.59 42.0 2.84e-01 75.0% 34.0%
3240036 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.59 51.0 3.22e-01 97.2% 89.6%
3930164 5.1.4.259 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, ANAPC4_WD40, WD40_CDC20-Fz 0.58 49.0 3.08e-01 95.8% 63.8%
3521736 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.58 51.0 3.35e-01 100.0% 92.9%
3273272 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.57 47.0 2.97e-01 90.3% 78.7%
4817086 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.57 36.0 4.24e-01 86.1% 93.9%
5001911 5.1.4.87 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › LVIVD 0.57 48.0 3.18e-01 95.8% 88.3%
3221538 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.55 43.0 2.79e-01 87.5% 95.3%
None — 0.54 48.0 3.18e-01 100.0% 97.0%
4667150 12.3.1.19 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Gal_mutarotas_2 0.54 47.0 3.38e-01 100.0% 95.0%
3579887 5.1.5.62 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › Beta-prop_LRRK2 0.54 42.0 2.81e-01 84.7% 95.1%
1117625 5.1.4.37 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Nup160 0.54 41.0 2.63e-01 86.1% 65.0%
3780250 5.1.4.74 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Vps16_N 0.54 41.0 2.85e-01 87.5% 46.2%
4504493 325.1.8.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Ribosomal L27 protein 0.53 39.0 3.78e-01 81.9% 89.4%
3539509 219.1.1.54 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C98 0.53 42.0 2.81e-01 94.4% 22.1%
3421470 12.3.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich 0.52 44.0 2.91e-01 97.2% 41.8%
3303112 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.51 43.0 3.77e-01 93.1% 75.5%
4047862 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.51 38.0 3.66e-01 81.9% 88.2%
4178962 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.50 37.0 3.56e-01 80.6% 88.2%
3974596 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.50 35.0 3.89e-01 77.8% 94.5%
4273113 286.1.1.1 ↗ a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › DAP_epimerase 0.50 40.0 3.20e-01 94.4% 87.1%
3375459 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.50 42.0 2.90e-01 91.7% 27.8%