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NC_011357.1__YP_002274253.1__Stx2-1717_gp43__00042

Bact-Vir

NC_011357.1__YP_002274253.1__Stx2-1717_gp43__00042

Identity

Accession:
NC_011357 ↗
Kingdom:
phage

Quality

83.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pankowvirus› Stx2-converting_phage_1717

TaxID: 563769

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 3-78
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF11183.15 best PmrD 92.1 2.90e-26 93.4% 97.3%
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4hn7A00 2.40.50.650 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.87 80.0 7.71e-01 100.0% 97.6%
1b7yB02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.72 51.0 4.41e-01 75.0% 72.4%
3rioA01 2.30.24.10 Mainly Beta › Roll › Transcription Regulation, Sacy; Chain A › CAT RNA-binding domain 0.71 56.0 5.94e-01 100.0% 95.6%
1mdaH00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.69 46.0 2.90e-01 100.0% 14.1%
7vd7A01 3.10.450.530 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Ribonuclease toxin, BrnT, of type II toxin-antitoxin system 0.65 50.0 4.72e-01 93.4% 67.4%
3cnwA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.65 40.0 3.20e-01 82.9% 33.3%
4mb7A01 3.20.190.10 Alpha Beta › Alpha-Beta Barrel › N-terminal domain of MutM-like DNA repair proteins › MutM-like, N-terminal 0.62 49.0 4.16e-01 86.8% 58.7%
4l1nA00 2.40.128.660 Mainly Beta › Beta Barrel › Lipocalin › Uncharacterised protein PF15525, DUF4652 0.59 43.0 3.40e-01 100.0% 37.3%
3i8tA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.58 45.0 3.69e-01 98.7% 45.0%
7qrlA01 2.70.70.10 Mainly Beta › Distorted Sandwich › Glucose Permease (Domain IIA) › Glucose Permease (Domain IIA) 0.57 46.0 3.88e-01 90.8% 57.8%
2r9yA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.56 46.0 3.75e-01 90.8% 83.6%
3ozqA01 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.56 46.0 3.65e-01 92.1% 55.8%
1qmnA01 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.56 45.0 3.77e-01 90.8% 72.1%
1imvA01 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.56 46.0 3.58e-01 90.8% 65.1%
1avgI00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.56 42.0 3.57e-01 85.5% 77.5%
1jmoA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.55 45.0 3.65e-01 90.8% 73.3%
1vlrA01 3.30.200.40 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Scavenger mRNA decapping enzyme, N-terminal domain 0.55 48.0 4.43e-01 94.7% 91.8%
5o46A00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 45.0 3.84e-01 85.5% 63.2%
2mctA00 2.60.40.4250 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 35.0 3.22e-01 98.7% 47.1%
4x30A02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.55 44.0 3.64e-01 90.8% 71.5%
3fgbA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.54 49.0 3.14e-01 100.0% 33.5%
2obdA01 3.15.20.10 Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 2 › Bactericidal permeability-increasing protein; domain 2 0.53 43.0 2.88e-01 86.8% 25.1%
1dxkA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.52 41.0 3.07e-01 89.5% 90.5%
3i2nA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 48.0 3.05e-01 100.0% 29.9%
2x0qA01 3.30.310.280 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.52 38.0 3.16e-01 100.0% 44.4%
2pm6D01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 47.0 3.17e-01 100.0% 35.4%
4cc9A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 47.0 3.09e-01 100.0% 32.6%
3fvzA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.52 47.0 3.04e-01 100.0% 35.3%
2obdA02 3.15.10.10 Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 1 › Bactericidal permeability-increasing protein; domain 1 0.52 42.0 3.10e-01 86.8% 60.8%
4a2lF02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 47.0 3.01e-01 98.7% 31.3%
1mg2A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.50 46.0 2.88e-01 100.0% 30.4%
1jyaB00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.50 42.0 3.60e-01 92.1% 66.1%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3948011 3816.1.1.1 ↗ beta barrels › Polymyxin B resistance protein › Polymyxin B resistance protein › Polymyxin B resistance protein › PmrD 0.97 91.0 9.04e-01 97.4% 97.4%
3981607 3816.1.1.1 ↗ beta barrels › Polymyxin B resistance protein › Polymyxin B resistance protein › Polymyxin B resistance protein › PmrD 0.95 91.0 8.94e-01 100.0% 97.5%
4174628 3816.1.1.1 ↗ beta barrels › Polymyxin B resistance protein › Polymyxin B resistance protein › Polymyxin B resistance protein › PmrD 0.95 90.0 8.87e-01 100.0% 97.5%
4056826 3816.1.1.1 ↗ beta barrels › Polymyxin B resistance protein › Polymyxin B resistance protein › Polymyxin B resistance protein › PmrD 0.91 86.0 8.45e-01 100.0% 97.5%
5030390 4312.1.1.0 ↗ a+b two layers › RelE-like › RelE-like › RelE-like 0.71 49.0 4.68e-01 93.4% 61.8%
2229 5.1.4.25 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Me-amine-dh_H 0.69 46.0 2.90e-01 100.0% 14.1%
4347893 5.1.4.35 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.65 47.0 3.02e-01 100.0% 16.5%
4977450 325.1.6.2 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.59 49.0 3.77e-01 90.8% 49.7%
3635973 12.3.1.9 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Glyco_hydro_81 0.59 50.0 3.32e-01 97.4% 22.6%
3782254 12.3.1.9 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Glyco_hydro_81 0.58 51.0 3.37e-01 100.0% 34.0%
3250651 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.57 41.0 2.70e-01 100.0% 17.3%
3275756 312.1.1.0 ↗ a+b three layers › HIT-like › HIT-related › HIT-related 0.56 49.0 3.93e-01 100.0% 96.8%
828 9.1.1.5 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › Triabin 0.56 42.0 3.57e-01 85.5% 77.5%
3844574 5.1.3.190 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Beta-prop_IFT140_1st 0.55 51.0 3.15e-01 100.0% 25.0%
4494049 5.1.4.35 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.55 50.0 3.17e-01 100.0% 33.3%
3608449 5.1.4.235 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_IFT140_1st 0.54 50.0 3.03e-01 100.0% 25.9%
3909452 5.1.4.223 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_RIC1_2nd 0.54 49.0 2.77e-01 100.0% 13.9%
4083083 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.54 48.0 3.21e-01 100.0% 32.0%
3277314 5.1.4.482 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, ANAPC4_WD40, Beta-prop_WDR75_2nd 0.53 49.0 3.05e-01 100.0% 24.1%
3734423 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.53 49.0 3.04e-01 100.0% 31.4%
143915 5.1.4.35 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.53 48.0 3.09e-01 100.0% 32.9%
4513159 312.1.1.5 ↗ a+b three layers › HIT-like › HIT-related › HIT-related › GalP_UDP_tr_C 0.53 45.0 3.55e-01 100.0% 98.9%
3888391 5.1.4.325 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, PF30552 0.52 48.0 3.05e-01 100.0% 31.1%
3740435 5.1.4.35 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.52 48.0 3.07e-01 100.0% 36.8%
3719566 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.52 46.0 3.10e-01 100.0% 39.0%
3379658 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.52 46.0 2.92e-01 98.7% 24.7%
4028948 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.52 47.0 2.89e-01 100.0% 31.4%
3744012 5.1.4.16 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › CPSF_A 0.51 44.0 2.88e-01 100.0% 32.8%
3417207 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.51 46.0 2.94e-01 100.0% 28.3%