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NC_055050.1__YP_010083912.1__KMD50_gp12__00012

Bact-Vir

NC_055050.1__YP_010083912.1__KMD50_gp12__00012

Identity

Accession:
NC_055050 ↗
Kingdom:
phage

Quality

64.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Uwajimavirus› Lactococcus_phage_PLgW-1

TaxID: 1983536

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 medium residues 27-48_68-107_142-158_174-190
PDB
D2 medium residues 108-141_159-173_191-209
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF06488.18 best L_lac_phage_MSP 26.3 6.60e-06 51.5% 15.1%
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2hhiA01 3.30.565.40 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Fervidobacterium nodosum Rt17-B1 like 0.58 34.0 2.90e-01 72.1% 32.2%
2bbhA01 3.30.460.20 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › CorA soluble domain-like 0.57 33.0 2.58e-01 77.9% 25.8%
1whqA01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.56 36.0 3.64e-01 98.5% 64.8%
1yqzA03 3.30.390.30 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › FAD/NAD-linked reductase, C-terminal dimerisation domain 0.54 36.0 3.14e-01 76.5% 43.5%
6pfzD02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 34.0 2.34e-01 79.4% 17.1%
2l2nA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.53 35.0 3.53e-01 98.5% 66.2%
6m9yA00 3.30.1300.40 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › 0.53 31.0 3.38e-01 76.5% 68.4%
3ro6C01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.53 45.0 3.91e-01 97.1% 87.7%
5hc2B00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.52 42.0 2.67e-01 94.1% 17.5%
1ya5T01 2.20.160.10 Mainly Beta › Single Sheet › titin filament fold › titin domain like 0.52 36.0 3.44e-01 100.0% 60.7%
6kghA02 3.30.450.330 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.51 43.0 3.41e-01 98.5% 42.9%
3kd9A02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 34.0 2.36e-01 76.5% 18.9%
4fx9A03 3.30.390.30 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › FAD/NAD-linked reductase, C-terminal dimerisation domain 0.51 34.0 2.87e-01 73.5% 41.6%
3i3lA02 3.30.390.160 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.50 33.0 2.79e-01 95.6% 36.8%
ECOD (30)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5056319 177.1.1.0 ↗ alpha bundles › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease 0.66 40.0 2.94e-01 70.6% 22.7%
3996695 3256.1.1.0 ↗ a+b two layers › DUF2233 N-terminal domain › DUF2233 N-terminal domain › DUF2233 N-terminal domain 0.64 40.0 4.35e-01 70.6% 78.2%
5013672 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.61 50.0 5.11e-01 92.6% 95.4%
3492710 389.1.2.0 ↗ few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain 0.60 44.0 4.51e-01 95.6% 81.5%
4820404 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.60 43.0 3.53e-01 100.0% 43.6%
3593394 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.58 40.0 3.25e-01 72.1% 62.3%
5039070 2.1.1.4 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_S17 0.58 40.0 3.33e-01 72.1% 67.5%
5078578 304.51.1.0 ↗ a+b two layers › Alpha-beta plaits › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR transcript (pre-crRNA) processing endoribonuclease-related 0.58 39.0 2.98e-01 70.6% 38.9%
5067682 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.57 39.0 3.59e-01 72.1% 87.8%
5050547 2.1.1.4 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_S17 0.57 39.0 3.30e-01 72.1% 71.3%
1829221 2.1.1.5 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_S17,Ribosomal_S17_N 0.56 39.0 2.99e-01 72.1% 84.5%
4947171 2.1.1.4 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_S17 0.56 38.0 3.36e-01 72.1% 76.2%
4159896 2003.1.1.59 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › NAD_binding_5 0.56 38.0 2.38e-01 72.1% 81.6%
3269932 5.1.5.27 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › APEH_N 0.55 47.0 2.90e-01 98.5% 18.5%
4990259 2.1.1.4 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_S17 0.55 38.0 3.08e-01 72.1% 60.8%
4856335 2.1.1.5 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_S17,Ribosomal_S17_N 0.55 38.0 2.95e-01 72.1% 53.3%
3728856 171.1.1.9 ↗ alpha arrays › RNase III catalytic domain-like › RNase III catalytic domain-like › RNase III catalytic domain-like › Ribonuclease_3, Ribonucleas_3_3 0.54 37.0 2.60e-01 72.1% 60.4%
3734626 171.1.1.1 ↗ alpha arrays › RNase III catalytic domain-like › RNase III catalytic domain-like › RNase III catalytic domain-like › Ribonuclease_3 0.54 37.0 2.62e-01 72.1% 59.5%
3261047 7579.1.1.6 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Abhydrolase_1 0.53 39.0 2.69e-01 80.9% 35.4%
4670754 304.51.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › RAMPs 0.53 36.0 2.61e-01 72.1% 47.8%
4136159 7503.1.1.0 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain 0.53 46.0 3.45e-01 100.0% 76.6%
3688447 2.1.1.4 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_S17 0.52 36.0 2.91e-01 72.1% 68.5%
4290772 825.1.1.2 ↗ beta complex topology › Aerolysin family of pore-forming toxins › Aerolysin family of pore-forming toxins › Aerolysin family of pore-forming toxins › ETX_MTX2 0.52 37.0 2.53e-01 76.5% 77.0%
3599647 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 43.0 3.23e-01 94.1% 88.6%
1245468 391.1.1.1 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module › fn1 0.51 30.0 3.49e-01 98.5% 90.5%
3709133 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.51 41.0 3.49e-01 91.2% 66.7%
3611338 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.51 42.0 3.50e-01 94.1% 68.8%
3499841 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.51 38.0 3.52e-01 97.1% 61.1%
None — 0.51 42.0 2.64e-01 95.6% 22.4%
4968312 2484.1.1.66 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_3 0.50 43.0 3.09e-01 100.0% 38.3%