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NC_068555.1__YP_010563443.1__OXC43_gp18__00018

Bact-Vir

NC_068555.1__YP_010563443.1__OXC43_gp18__00018

Identity

Accession:
NC_068555 ↗
Kingdom:
phage

Quality

65.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Efbeekayvirus› Klebsiella_phage_vB_KpP_FBKp27

TaxID: 2801837

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 91-213_363-409
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2qlvB02 2.20.25.290 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.67 17.0 3.42e-01 84.7% 92.1%
1tu1A00 3.40.1000.10 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich 0.66 26.0 2.84e-01 97.6% 41.7%
7jrmA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.64 24.0 3.71e-01 95.3% 81.1%
4mb4A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 23.0 3.38e-01 94.1% 72.2%
4pkcC00 6.20.90.20 Special › Other non-globular › SH3 type barrels. › Benzylsuccinate synthase gamma subunit 0.60 17.0 3.34e-01 88.2% 100.0%
1n2bB02 3.30.1300.10 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › Pantoate-beta-alanine ligase, C-terminal domain 0.59 24.0 3.01e-01 94.7% 58.7%
4nzjA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 22.0 2.98e-01 94.1% 73.6%
1hnfA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 21.0 2.99e-01 97.6% 79.7%
ECOD (12)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3352475 330.3.1.0 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like 0.73 22.0 3.34e-01 90.0% 60.0%
4040973 330.4.1.1 ↗ a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.64 25.0 3.71e-01 97.1% 82.9%
3959925 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.62 26.0 3.29e-01 97.6% 63.0%
5039868 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 21.0 3.61e-01 94.7% 92.7%
4957500 283.2.1.0 ↗ a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like 0.60 25.0 3.28e-01 95.3% 67.4%
3987123 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.60 25.0 3.28e-01 96.5% 67.8%
5069695 330.2.1.5 ↗ a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › PF29181 0.58 26.0 3.15e-01 98.8% 62.4%
4932637 330.2.1.0 ↗ a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) 0.57 25.0 3.33e-01 98.8% 74.4%
5013768 330.2.1.5 ↗ a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › PF29181 0.57 25.0 3.25e-01 99.4% 70.5%
4937410 330.2.1.0 ↗ a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) 0.57 25.0 3.34e-01 98.8% 73.7%
5056130 330.2.1.0 ↗ a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) 0.53 25.0 3.20e-01 98.8% 76.8%
4942285 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 23.0 3.48e-01 91.2% 100.0%
D2 high residues 216-328
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4d6gA03 2.60.220.10 Mainly Beta › Sandwich › Chondroitinase Ac; Chain A, domain 3 › Polysaccharide lyase family 8-like, C-terminal 0.60 29.0 2.76e-01 76.1% 40.0%
3d0jA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.59 27.0 2.51e-01 90.3% 33.3%
2xzmJ00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.59 41.0 4.29e-01 97.3% 78.1%
3d2uA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 32.0 3.53e-01 80.5% 65.2%
2nyiA02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.58 33.0 3.64e-01 98.2% 68.9%
1lr5B00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.58 27.0 2.39e-01 90.3% 30.8%
3onrJ00 3.30.1660.10 Alpha Beta › 2-Layer Sandwich › Dodecin subunit-like › Flavin-binding protein dodecin 0.57 34.0 4.16e-01 99.1% 97.1%
1t16A00 2.40.160.60 Mainly Beta › Beta Barrel › Porin › Outer membrane protein transport protein (OMPP1/FadL/TodX) 0.57 48.0 3.28e-01 93.8% 90.2%
7k0xA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 29.0 3.42e-01 94.7% 70.5%
1egjA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 28.0 2.98e-01 83.2% 54.5%
1s3rA04 2.60.40.1430 Mainly Beta › Sandwich › Immunoglobulin-like › Perfringolysin, domain 4 0.54 31.0 3.19e-01 83.2% 56.8%
3a27A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.54 30.0 2.49e-01 100.0% 27.4%
1lshA01 2.30.230.10 Mainly Beta › Roll › Lipovitellin-phosvitin complex; beta-sheet shell regions › Lipovitellin; beta-sheet shell regions, chain A 0.53 45.0 3.46e-01 92.9% 94.3%
1ex0A03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 34.0 3.40e-01 86.7% 63.2%
3c12A02 2.60.40.4070 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 28.0 3.19e-01 86.7% 67.8%
3io1A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 36.0 3.61e-01 85.8% 69.0%
6y1zA01 2.70.170.10 Mainly Beta › Distorted Sandwich › Acetylcholine Binding Protein; Chain: A, › Neurotransmitter-gated ion-channel ligand-binding domain 0.50 34.0 2.75e-01 92.9% 36.8%
ECOD (12)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3933347 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.68 33.0 3.62e-01 88.5% 56.8%
4298813 327.6.1.6 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Fe-S cluster assembly (FSCA) domain-like › Fe-S cluster assembly (FSCA) domain-like › Secretin 0.67 57.0 4.40e-01 90.3% 100.0%
4636309 5084.1.1.0 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like 0.63 54.0 4.36e-01 92.9% 94.4%
4338913 327.16.1.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system › Secretin 0.62 52.0 4.07e-01 91.2% 100.0%
4330210 327.6.1.6 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Fe-S cluster assembly (FSCA) domain-like › Fe-S cluster assembly (FSCA) domain-like › Secretin 0.57 51.0 3.90e-01 99.1% 81.1%
1503409 220.3.1.1 ↗ beta barrels › PH domain-like › first barrel domain in viral glycoproteins › first barrel domain in viral glycoproteins › Rhabdo_glycop 0.55 42.0 4.06e-01 95.6% 70.5%
1933318 327.6.1.6 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Fe-S cluster assembly (FSCA) domain-like › Fe-S cluster assembly (FSCA) domain-like › Secretin 0.55 48.0 3.71e-01 97.3% 86.0%
5068348 11.12.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like 0.54 35.0 3.08e-01 100.0% 43.6%
4301927 5084.1.1.10 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like › OMP_b-brl 0.54 45.0 3.64e-01 92.0% 92.6%
3279429 2003.1.5.81 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 0.53 36.0 2.95e-01 92.9% 37.7%
3212564 11.1.1.41 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_C 0.53 35.0 3.17e-01 99.1% 50.7%
178766 10.2.1.53 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › IHHNV_capsid 0.51 45.0 3.38e-01 100.0% 87.6%
D3 high residues 848-892
PDB
D4 medium residues 23-83
PDB
D5 medium residues 419-486_625-695
PDB
Domain cluster: rep: NC_048639.1__YP_009830589.1__HWA94_gp18__00018__D63-77_79-89_361-465_620-669
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3c6fA02 3.30.240.20 Alpha Beta › 2-Layer Sandwich › CRO Repressor › bsu07140 like domains 0.63 30.0 4.23e-01 84.9% 98.4%
1e5rB01 2.60.120.330 Mainly Beta › Sandwich › Jelly Rolls › B-lactam Antibiotic, Isopenicillin N Synthase; Chain 0.50 41.0 3.81e-01 88.5% 68.6%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4497106 101.36.1.1 ↗ alpha arrays › HTH › YetF C-terminal domain › YetF C-terminal domain › DUF421 0.70 32.0 4.45e-01 84.2% 90.8%
4662506 101.36.1.1 ↗ alpha arrays › HTH › YetF C-terminal domain › YetF C-terminal domain › DUF421 0.68 32.0 4.51e-01 84.9% 100.0%
3387152 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.51 27.0 3.16e-01 79.1% 71.6%
D6 medium residues 487-624
PDB
Domain cluster: representative
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3c4aA02 3.30.9.20 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › 0.64 32.0 3.17e-01 98.6% 45.9%
3gw6A03 3.30.2460.10 Alpha Beta › 2-Layer Sandwich › Endo-n-acetylneuraminidase fold › Endo-n-acetylneuraminidase domain 0.58 19.0 2.78e-01 84.1% 61.4%
3h51A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 36.0 3.62e-01 89.9% 66.2%
3bdrA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.53 28.0 2.75e-01 87.7% 43.6%
3wa5B00 2.60.120.1690 Mainly Beta › Sandwich › Jelly Rolls › 0.53 36.0 3.80e-01 88.4% 76.6%
1uynX00 2.40.128.130 Mainly Beta › Beta Barrel › Lipocalin › Autotransporter beta-domain 0.52 31.0 2.53e-01 79.7% 28.0%
2f86B00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 35.0 3.66e-01 89.9% 72.9%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4973777 881.1.1.1 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like › PsbP 0.50 43.0 4.17e-01 90.6% 86.9%