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NC_055728.1__YP_010092365.1__KNT72_gp201__00214

Bact-Vir

NC_055728.1__YP_010092365.1__KNT72_gp201__00214

Identity

Accession:
NC_055728 ↗
Kingdom:
phage

Quality

82.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Winklervirus› Serratia_phage_X20

TaxID: 2006942

Cluster

View cluster (36 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 9-96
PDB
Domain cluster: rep: MW239124.1__QQG32192.1__CkP1_0225__00225__D6-80
D2 high residues 105-160
PDB
Domain cluster: representative
CATH (24)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4u9cA01 2.40.128.250 Mainly Beta › Beta Barrel › Lipocalin › 0.65 54.0 4.34e-01 100.0% 87.9%
1vi7A01 3.30.230.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › Impact, N-terminal domain 0.61 46.0 3.53e-01 92.9% 34.1%
1va9A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 44.0 3.50e-01 100.0% 38.5%
6jptA00 3.30.230.90 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.58 44.0 3.44e-01 83.9% 38.0%
4p04A01 2.60.40.3100 Mainly Beta › Sandwich › Immunoglobulin-like › Arylsulphate sulphotransferase monomer, N-terminal domain 0.58 43.0 3.59e-01 100.0% 44.3%
4njcA00 3.10.20.730 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNAP, epsilon subunit-like 0.57 45.0 4.50e-01 100.0% 85.0%
2h1yA02 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.56 49.0 4.59e-01 100.0% 90.0%
1d6uA03 2.70.98.20 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Copper amine oxidase, catalytic domain 0.56 45.0 2.69e-01 100.0% 12.2%
1vq8B03 3.30.1430.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L3; Chain: B; domain 2, › 0.56 41.0 3.44e-01 83.9% 45.9%
2qyxA02 3.30.70.1360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › mj0159-like 0.55 41.0 3.47e-01 100.0% 43.4%
4a18X01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.55 45.0 4.17e-01 100.0% 72.2%
4hscX04 2.60.40.1430 Mainly Beta › Sandwich › Immunoglobulin-like › Perfringolysin, domain 4 0.54 43.0 3.53e-01 100.0% 46.4%
4d10F01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.54 47.0 3.35e-01 100.0% 42.5%
5kfzA04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.54 42.0 3.53e-01 100.0% 52.8%
2z5bB01 3.30.230.90 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.53 40.0 3.21e-01 82.1% 46.2%
2wnwA01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.53 46.0 3.79e-01 100.0% 99.1%
4ag4A02 2.60.120.1190 Mainly Beta › Sandwich › Jelly Rolls › 0.53 43.0 3.15e-01 100.0% 29.8%
4ksnA00 6.20.250.80 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.52 47.0 4.46e-01 100.0% 86.2%
2a90A01 3.30.720.50 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.52 45.0 3.79e-01 100.0% 79.6%
3q8pB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.51 38.0 3.20e-01 82.1% 82.4%
2irmA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.51 43.0 2.72e-01 100.0% 95.0%
2v3sA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.51 41.0 3.63e-01 100.0% 61.5%
3hvnA01 3.90.840.10 Alpha Beta › Alpha-Beta Complex › HIV-1 Reverse Transcriptase; Chain A, domain 3 › Thiol-activated cytolysin superfamily/Thiol-activated cytolysin, alpha-beta domain 0.51 42.0 3.12e-01 100.0% 64.0%
3ud1A02 2.60.220.30 Mainly Beta › Sandwich › Chondroitinase Ac; Chain A, domain 3 › 0.51 37.0 2.81e-01 100.0% 28.6%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3300115 221.1.1.76 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.70 60.0 4.90e-01 100.0% 52.4%
5065205 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.67 57.0 4.33e-01 100.0% 100.0%
3252771 821.1.1.0 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.60 50.0 4.47e-01 100.0% 64.7%
4084879 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.60 50.0 4.41e-01 100.0% 62.4%
4029586 10.32.1.203 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Seipin 0.60 53.0 3.90e-01 100.0% 72.7%
4011587 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.60 48.0 3.75e-01 100.0% 38.6%
3248836 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.59 41.0 3.08e-01 83.9% 27.1%
4659490 302.2.1.1 ↗ a+b two layers › Reverse ferredoxin › RuBisCO, small subunit › RuBisCO, small subunit › RuBisCO_small 0.59 49.0 4.01e-01 98.2% 50.4%
1002449 3662.1.1.1 ↗ a+b two layers › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › PAC3 0.58 44.0 3.44e-01 83.9% 37.7%
3592222 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.58 50.0 3.68e-01 100.0% 65.2%
3996298 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.57 48.0 4.39e-01 100.0% 97.5%
3477651 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.57 47.0 4.81e-01 98.2% 100.0%
3874464 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.56 47.0 2.94e-01 100.0% 62.3%
3600531 4012.3.1.0 ↗ a+b two layers › SSHS domain › SSHS domain in CRISPR-associated endonuclease Cas9 › SSHS domain in CRISPR-associated endonuclease Cas9 0.56 47.0 4.84e-01 98.2% 100.0%
3793097 304.112.1.0 ↗ a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain 0.56 49.0 3.79e-01 100.0% 88.0%
4518867 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.56 49.0 4.14e-01 100.0% 64.2%
3567758 10.32.1.7 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › XRCC1_N 0.55 46.0 3.51e-01 100.0% 66.0%
3895205 11.1.1.96 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C1-set 0.55 46.0 3.76e-01 100.0% 52.2%
4031645 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.54 41.0 4.29e-01 100.0% 98.0%
1442666 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.54 45.0 4.11e-01 100.0% 70.4%
4027775 2494.1.1.1 ↗ a/b three-layered sandwiches › DTD-like › DTD-like (Pfam 02580) › DTD-like (Pfam 02580) › Tyr_Deacylase 0.54 44.0 3.31e-01 100.0% 83.5%
3892842 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.53 44.0 4.30e-01 100.0% 86.2%
4944071 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 46.0 3.67e-01 100.0% 55.7%
4002797 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.53 41.0 2.96e-01 85.7% 86.5%
4939058 3457.1.1.3 ↗ alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Arc_PepC_II 0.51 36.0 2.43e-01 78.6% 30.0%
3511679 2496.1.1.2 ↗ a/b three-layered sandwiches › SpoIIaa-like › SpoIIaa-like › SpoIIaa-like › STAS 0.50 40.0 2.99e-01 100.0% 63.8%