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NC_055728.1__YP_010092211.1__KNT72_gp060__00060

Bact-Vir

NC_055728.1__YP_010092211.1__KNT72_gp060__00060

Identity

Accession:
NC_055728 ↗
Kingdom:
phage

Quality

95.7 mean pLDDT

Taxonomy

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

TaxID: 2006942

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 5-86
PDB
Domain cluster: rep: OQ927978.1__WKV23408.1__SEA1_gp0060__00060__D5-82
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF23830.2 best DUF7200 115.7 1.50e-33 100.0% 95.5%
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3k44B00 3.30.2450.30 Alpha Beta › 2-Layer Sandwich › Secreted effector protein pipB2 fold › 0.70 61.0 5.11e-01 96.3% 98.6%
2ymsB00 2.40.10.480 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.65 42.0 4.45e-01 96.3% 74.3%
2fhxA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.64 47.0 3.38e-01 91.5% 26.5%
1whzA00 3.30.920.30 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Hypothetical protein. 0.63 44.0 4.66e-01 76.8% 85.5%
3lulA01 3.30.470.10 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › Aminotransferase class 4, branched-chain amino acid transferase, N-terminal domain 0.62 52.0 4.72e-01 92.7% 98.2%
3dsoA00 2.40.10.300 Mainly Beta › Beta Barrel › Thrombin, subunit H › Copper resistance protein K 0.60 39.0 4.32e-01 93.9% 83.3%
3jtzA00 3.30.160.390 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Integrase, DNA-binding domain 0.59 40.0 4.17e-01 70.7% 79.2%
3cswC01 3.30.470.10 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › Aminotransferase class 4, branched-chain amino acid transferase, N-terminal domain 0.59 53.0 4.89e-01 100.0% 97.2%
5ajiB02 2.30.30.60 Mainly Beta › Roll › SH3 type barrels. › 0.59 34.0 4.10e-01 87.8% 94.0%
3d0fA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.58 31.0 3.25e-01 90.2% 54.8%
3p34A02 3.30.1120.30 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › POLO box domain 0.56 50.0 4.76e-01 100.0% 86.6%
4q66D01 6.20.120.50 Special › Other non-globular › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.56 28.0 2.99e-01 86.6% 47.9%
2f33A01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.56 40.0 4.30e-01 76.8% 87.3%
4g7nA02 3.30.1120.130 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.55 48.0 4.60e-01 100.0% 90.7%
3mfiA03 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.55 45.0 4.70e-01 91.5% 100.0%
4zgfA00 2.40.128.270 Mainly Beta › Beta Barrel › Lipocalin › 0.55 46.0 3.85e-01 91.5% 83.7%
2zkmX01 2.30.29.240 Mainly Beta › Roll › PH-domain like › 0.53 45.0 3.45e-01 98.8% 62.6%
2wm1A00 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.52 40.0 2.72e-01 85.4% 26.8%
2yf0A01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 46.0 4.51e-01 98.8% 100.0%
2jmbA00 2.40.128.290 Mainly Beta › Beta Barrel › Lipocalin › Uncharacterised protein family Atu4866 0.51 42.0 4.26e-01 93.9% 92.4%
3au4A04 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 43.0 4.22e-01 97.6% 94.6%
6n8pA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 43.0 2.82e-01 93.9% 81.2%
1w97L02 3.30.420.370 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › GspL cytoplasmic domain, C-terminal subdomain 0.51 41.0 4.24e-01 95.1% 100.0%
3kbgA02 2.40.50.740 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Ribosomal protein S4, central domain 0.51 31.0 3.61e-01 73.2% 94.3%
4e4fA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.50 40.0 3.43e-01 89.0% 65.2%
5kiqA02 3.10.20.890 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.50 32.0 3.41e-01 96.3% 73.6%
5zctA01 3.40.50.20 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.50 34.0 3.11e-01 70.7% 83.3%
4j0xA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.50 42.0 2.81e-01 96.3% 59.5%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3272708 292.2.1.1 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › POLO_box 0.70 49.0 4.99e-01 98.8% 75.0%
4029623 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.65 45.0 2.68e-01 70.7% 14.9%
3291448 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.63 43.0 4.17e-01 70.7% 92.2%
5014724 295.1.1.51 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › FtsQ_DivIB_C 0.62 53.0 5.03e-01 96.3% 96.0%
2391664 247.1.1.1 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B 0.62 46.0 3.36e-01 92.7% 27.3%
3601171 1021.1.1.0 ↗ a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases 0.62 35.0 3.53e-01 97.6% 55.3%
5002984 330.7.1.2 ↗ a+b two layers › dsRBD-like › PI-Pfui intein middle domain › PI-Pfui intein middle domain › HicA_toxin 0.61 43.0 4.61e-01 78.0% 87.1%
1883336 1104.1.1.1 ↗ a+b complex topology › Helicase Cch N-terminal domain › Helicase Cch N-terminal domain › Helicase Cch N-terminal domain › DUF927 0.60 51.0 4.29e-01 96.3% 67.6%
3774338 292.2.1.6 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › DUF4520 0.59 52.0 4.71e-01 96.3% 85.5%
1884741 4.1.1.130 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_19 0.59 36.0 4.16e-01 89.0% 86.4%
2646217 5.1.2.34 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › PQQ_2 0.59 39.0 4.28e-01 95.1% 85.9%
4981036 4.1.1.13 ↗ beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd 0.58 33.0 4.08e-01 82.9% 100.0%
3884680 292.2.1.6 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › DUF4520 0.58 50.0 4.61e-01 100.0% 91.8%
4972854 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.58 48.0 3.94e-01 91.5% 55.3%
3599237 292.2.1.0 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain 0.57 50.0 4.89e-01 100.0% 97.8%
2512682 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.57 35.0 3.93e-01 87.8% 87.3%
4861381 5.1.4.40 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PQQ_2 0.57 39.0 3.99e-01 96.3% 72.5%
5036086 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.57 39.0 3.99e-01 72.0% 97.5%
5064976 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.57 42.0 3.43e-01 79.3% 76.9%
3706670 292.2.1.6 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › DUF4520 0.57 48.0 4.47e-01 98.8% 78.2%
3246494 292.2.1.1 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › POLO_box 0.56 50.0 3.60e-01 100.0% 33.9%
4022346 12.3.1.6 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Bgal_small_N 0.56 44.0 3.01e-01 86.6% 92.5%
3916950 292.2.1.1 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › POLO_box 0.56 50.0 3.46e-01 100.0% 31.1%
4797890 292.2.1.1 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › POLO_box 0.56 47.0 4.69e-01 92.7% 94.1%
3739307 604.12.1.56 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › ASTER 0.56 37.0 3.96e-01 90.2% 80.0%
3994625 5.1.4.30 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › LLGL 0.56 45.0 2.95e-01 87.8% 33.8%
3613891 5.1.4.341 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_IFT140_2nd 0.55 43.0 2.78e-01 85.4% 31.1%
5072965 2002.1.1.57 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › URO-D 0.54 42.0 2.73e-01 81.7% 37.5%
3924117 5.1.4.237 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_WDR36-Utp21_2nd 0.52 46.0 3.00e-01 100.0% 22.6%
3499681 292.2.1.1 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › POLO_box 0.52 45.0 4.38e-01 97.6% 97.8%
1677788 292.2.1.1 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › POLO_box 0.52 44.0 4.34e-01 100.0% 90.9%
4987392 2002.1.1.57 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › URO-D 0.52 39.0 2.67e-01 82.9% 62.1%
4104948 5.1.3.39 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › TrAA12 0.51 46.0 3.00e-01 98.8% 42.3%
3782826 4.1.1.39 ↗ beta barrels › SH3 › SH3 › SH3 › SHD1 0.51 35.0 3.65e-01 96.3% 77.3%
3357666 109.59.1.16 ↗ alpha superhelices › Repetitive alpha hairpins › Intraflagellar transport protein 80 (IFT80) C-terminal domain › Intraflagellar transport protein 80 (IFT80) C-terminal domain › PPR 0.51 38.0 3.61e-01 82.9% 77.1%
3718669 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.50 39.0 2.53e-01 84.1% 85.8%
3956995 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.50 43.0 4.18e-01 97.6% 85.6%