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LC492752.1__BBM81561.1__X__00122

Bact-Vir

LC492752.1__BBM81561.1__X__00122

Identity

Accession:
LC492752 ↗
Kingdom:
phage

Quality

72.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Silviavirus› Staphylococcus_phage_KSAP11

TaxID: 2599602

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 8-60
PDB
D2 high residues 76-205
PDB
Domain cluster: rep: IMGVR_UViG_3300021426_000003-3300021426-Ga0224482_1000007218__D192-304
CATH (52)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3r3pB00 3.40.960.10 Alpha Beta › 3-Layer(aba) Sandwich › Endonuclease; Chain A › VSR Endonuclease 0.81 56.0 6.44e-01 89.2% 93.9%
1vsrA00 3.40.960.10 Alpha Beta › 3-Layer(aba) Sandwich › Endonuclease; Chain A › VSR Endonuclease 0.76 64.0 6.34e-01 88.5% 88.8%
1t0fA01 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.70 54.0 4.93e-01 79.2% 66.7%
7e24A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.67 56.0 4.51e-01 87.7% 89.5%
1w6uD00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.67 56.0 4.28e-01 88.5% 73.4%
5z2lA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.66 55.0 4.45e-01 88.5% 85.4%
4iuyA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.66 55.0 4.36e-01 88.5% 85.8%
3ausA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.66 55.0 4.31e-01 88.5% 83.2%
3ksuB00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.66 55.0 4.51e-01 87.7% 85.7%
3wtbC00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.66 54.0 4.40e-01 88.5% 87.7%
3gdgA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.66 54.0 4.26e-01 88.5% 81.6%
3pk0D00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.64 53.0 4.22e-01 88.5% 83.0%
3u9lA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.64 53.0 4.09e-01 88.5% 80.8%
2b4qB00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.64 52.0 4.25e-01 88.5% 85.9%
3afmB00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.64 52.0 4.31e-01 88.5% 86.3%
3kvnA01 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.63 52.0 3.91e-01 87.7% 92.5%
4fdaA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.63 52.0 4.22e-01 88.5% 94.7%
1z8hA00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.63 52.0 4.49e-01 88.5% 93.1%
5iz4A00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.63 52.0 4.20e-01 88.5% 87.4%
6ln3A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 51.0 4.43e-01 88.5% 90.6%
2yutA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.62 50.0 4.36e-01 87.7% 92.5%
7br2D01 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.62 49.0 4.14e-01 84.6% 90.8%
3s1sA01 3.90.1570.30 Alpha Beta › Alpha-Beta Complex › tt1808, chain A › 0.61 50.0 4.62e-01 87.7% 83.4%
4uopA02 3.40.720.10 Alpha Beta › 3-Layer(aba) Sandwich › Alkaline Phosphatase, subunit A › Alkaline Phosphatase, subunit A 0.59 52.0 3.91e-01 96.2% 80.8%
3obwA03 3.30.1330.30 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Ribosomal protein L30/S12 0.58 36.0 4.02e-01 77.7% 78.4%
3czpB01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.58 48.0 4.11e-01 90.0% 75.1%
1texA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.58 50.0 4.16e-01 96.2% 87.0%
1ihuA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 45.0 3.51e-01 83.8% 93.4%
5fc1A01 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.57 49.0 3.49e-01 94.6% 80.2%
4q34A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.56 46.0 3.51e-01 90.0% 85.0%
1cp2A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 45.0 3.61e-01 88.5% 86.6%
1ypxA00 3.20.20.210 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › 0.55 47.0 3.58e-01 93.8% 89.9%
4eadA02 3.40.1030.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2 › Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain 0.55 49.0 4.11e-01 100.0% 86.0%
3aptA00 3.20.20.220 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › 0.55 39.0 3.00e-01 73.8% 88.4%
4kt7A00 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 0.54 39.0 3.32e-01 75.4% 81.1%
3bxpB00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.54 44.0 3.57e-01 90.0% 80.5%
2q3fA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 44.0 3.96e-01 88.5% 91.1%
3k93A00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.53 42.0 3.55e-01 85.4% 57.0%
2bgwB01 3.40.50.10130 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 44.0 4.46e-01 90.0% 91.6%
3ayvD00 3.20.20.150 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Divalent-metal-dependent TIM barrel enzymes 0.53 45.0 3.70e-01 93.1% 79.9%
6yuqA01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.52 42.0 3.50e-01 88.5% 85.2%
8gj8A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 45.0 3.60e-01 92.3% 70.0%
1zu4A02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 47.0 4.00e-01 100.0% 82.1%
1xdiA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.52 44.0 3.72e-01 91.5% 95.4%
1cvrA02 3.40.50.1460 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.52 43.0 3.54e-01 88.5% 79.7%
7n29C01 3.40.50.10330 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Probable inorganic polyphosphate/atp-NAD kinase; domain 1 0.52 37.0 3.57e-01 74.6% 94.1%
4wnyA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.52 42.0 4.21e-01 86.9% 87.1%
7plsA01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.51 43.0 3.20e-01 90.8% 69.8%
3ngxA02 3.40.50.10860 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 0.51 32.0 3.85e-01 72.3% 97.6%
4yleA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 40.0 4.01e-01 89.2% 80.3%
1yd9B00 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.51 39.0 3.53e-01 83.1% 73.3%
1zjcA01 3.40.1830.10 Alpha Beta › 3-Layer(aba) Sandwich › Thermophilic metalloprotease-like › Thermophilic metalloprotease (M29) 0.50 41.0 3.78e-01 90.8% 83.9%
ECOD (51)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5048618 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.82 69.0 6.85e-01 87.7% 98.5%
5080733 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.76 71.0 7.12e-01 100.0% 100.0%
5022187 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.71 65.0 6.12e-01 98.5% 92.3%
3517411 2008.1.1.30 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Tn7_TnsA-like_N 0.67 59.0 5.03e-01 100.0% 60.5%
3634244 2003.1.1.69 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short_C2 0.67 55.0 4.34e-01 87.7% 86.9%
3262617 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.66 47.0 5.11e-01 74.6% 97.3%
4937630 2006.1.6.15 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › DUF58 0.65 54.0 4.52e-01 89.2% 86.4%
3773669 2004.1.1.191 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_17 0.64 55.0 4.48e-01 90.8% 92.2%
3633466 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.64 52.0 3.99e-01 86.9% 74.2%
4975222 2004.1.1.191 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_17 0.64 53.0 4.55e-01 88.5% 91.5%
5076653 2007.3.1.6 ↗ a/b three-layered sandwiches › Flavodoxin-like › Succinyl-CoA synthetase domains › Succinyl-CoA synthetase domains › Ligase_CoA_2 0.63 53.0 4.77e-01 90.0% 86.1%
3954346 2006.1.6.15 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › DUF58 0.63 52.0 3.98e-01 87.7% 65.8%
4959231 2006.1.6.15 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › DUF58 0.62 49.0 4.14e-01 83.8% 81.9%
4532819 2484.1.1.287 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RsgI_M 0.61 50.0 4.61e-01 87.7% 95.3%
4281154 2004.1.1.191 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_17 0.61 52.0 4.57e-01 90.0% 90.8%
4958435 2008.1.1.96 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RmuC 0.61 51.0 4.17e-01 90.0% 64.3%
5072639 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.60 49.0 4.62e-01 87.7% 89.9%
5076660 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.60 48.0 5.08e-01 85.4% 95.6%
4303957 2006.1.6.15 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › DUF58 0.60 46.0 4.35e-01 80.0% 90.3%
137824 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.60 43.0 3.81e-01 75.4% 92.3%
5042118 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.59 49.0 4.66e-01 90.0% 84.5%
3589020 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.58 47.0 4.53e-01 86.2% 78.0%
3955044 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.58 46.0 3.71e-01 86.9% 77.0%
4459358 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.58 45.0 4.70e-01 86.2% 89.2%
3838560 2008.1.1.78 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_endonuc 0.58 46.0 4.05e-01 86.2% 59.5%
3416022 2007.1.2.30 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › IR75A_N 0.57 44.0 3.80e-01 80.8% 87.8%
5041188 2006.1.6.15 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › DUF58 0.57 45.0 3.80e-01 81.5% 79.5%
5053209 2004.1.1.1 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA 0.56 41.0 3.79e-01 75.4% 65.5%
3681518 2007.5.1.17 ↗ a/b three-layered sandwiches › Flavodoxin-like › SGNH hydrolase › SGNH hydrolase › PC-Esterase 0.56 45.0 3.37e-01 86.9% 78.3%
2570431 2008.1.1.75 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › capSnatchArena 0.56 51.0 4.41e-01 100.0% 75.6%
1787694 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.56 45.0 4.00e-01 86.9% 88.5%
1201370 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.56 45.0 3.95e-01 86.2% 88.7%
4879645 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.55 45.0 4.01e-01 86.2% 90.0%
4994780 2484.1.1.124 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.54 48.0 4.13e-01 99.2% 94.9%
4979574 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.54 43.0 3.98e-01 85.4% 95.9%
5050811 2484.1.1.59 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.54 45.0 3.26e-01 91.5% 88.9%
3680038 2005.1.1.43 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › CHX17_2nd 0.54 45.0 3.98e-01 90.8% 87.4%
5081472 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.53 44.0 4.20e-01 88.5% 91.5%
5052889 2004.1.1.76 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF87 0.53 45.0 3.25e-01 91.5% 81.0%
5058363 2003.1.10.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › PreATP-grasp domain 0.53 40.0 4.14e-01 81.5% 85.0%
4928066 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.52 42.0 3.83e-01 86.9% 96.6%
3362218 2005.1.1.36 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › SLC12 0.52 40.0 3.72e-01 83.1% 77.6%
5071204 2005.1.1.3 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.52 41.0 3.98e-01 84.6% 89.0%
5023003 2005.1.1.3 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.52 42.0 4.27e-01 87.7% 89.1%
4979884 2005.1.1.3 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.51 40.0 3.96e-01 84.6% 87.4%
4996622 2004.1.1.1 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA 0.51 44.0 3.89e-01 94.6% 67.2%
10956 7590.1.1.1 ↗ a/b three-layered sandwiches › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Peptidase_M29 0.51 43.0 3.87e-01 91.5% 81.8%
3956485 2008.1.1.16 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.51 45.0 4.23e-01 98.5% 78.8%
4928866 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.51 40.0 4.06e-01 86.9% 84.6%
4029287 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.51 45.0 3.55e-01 99.2% 58.9%
3457145 2004.1.1.462 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › NBD_SMAX1 0.50 44.0 3.99e-01 98.5% 69.4%