Back to structures

PH2017_36_ELK_O_B_scaffold_2_prodigal-single.1__X__X__00291

Bact-Vir

PH2017_36_ELK_O_B_scaffold_2_prodigal-single.1__X__X__00291

Identity

Kingdom:
phage

Quality

49.7 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 22-99_120-204
PDB
D2 high residues 351-477_549-567
PDB
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6z0jA03 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.67 54.0 5.89e-01 100.0% 100.0%
4f7kA02 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.63 50.0 5.22e-01 100.0% 88.4%
6voxA01 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.63 54.0 5.65e-01 100.0% 99.2%
2uxtA02 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.62 52.0 5.03e-01 100.0% 80.1%
5jdjA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 35.0 4.26e-01 96.6% 90.1%
1ztxE00 2.60.40.350 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 38.0 4.42e-01 95.2% 92.1%
1pbyA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 31.0 4.10e-01 97.3% 96.1%
4m9pA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 37.0 4.25e-01 95.2% 93.0%
1ej6A05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 36.0 4.37e-01 91.1% 97.9%
1zpuA02 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.57 53.0 4.94e-01 100.0% 80.6%
3wo4B01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 36.0 4.24e-01 99.3% 94.8%
3pnrB00 2.60.40.2020 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 46.0 4.86e-01 100.0% 96.9%
1ikoP00 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.56 48.0 4.94e-01 100.0% 95.0%
1hkfA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 39.0 4.45e-01 92.5% 99.1%
5eliA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 39.0 4.38e-01 77.4% 96.4%
1q8mA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 40.0 4.30e-01 78.1% 90.9%
2mh4A00 2.60.40.1080 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 32.0 3.82e-01 95.9% 91.3%
3mj6A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 38.0 4.25e-01 76.7% 97.3%
1eajB00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 40.0 4.33e-01 97.3% 97.5%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5028418 3156.1.1.13 beta sandwiches › Cupredoxin-like › Cupredoxin-related › Cupredoxin-related › Cupredoxin_1 0.79 45.0 5.86e-01 100.0% 97.6%
4929577 3156.1.1.13 beta sandwiches › Cupredoxin-like › Cupredoxin-related › Cupredoxin-related › Cupredoxin_1 0.72 54.0 5.35e-01 100.0% 74.0%
3413606 3156.1.1.23 beta sandwiches › Cupredoxin-like › Cupredoxin-related › Cupredoxin-related › Cu-oxidase, Cu-oxidase_2 0.62 58.0 4.03e-01 100.0% 44.4%
4626921 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 39.0 4.47e-01 95.2% 93.3%
3415410 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 38.0 4.47e-01 96.6% 100.0%
4953532 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 33.0 4.13e-01 96.6% 95.3%
3403863 3156.1.1.0 beta sandwiches › Cupredoxin-like › Cupredoxin-related › Cupredoxin-related 0.57 54.0 4.90e-01 100.0% 92.1%
1209510 11.31.1.1 beta sandwiches › Immunoglobulin-like beta-sandwich › Beta-galactosidase LacA beta-sandwich domain › Beta-galactosidase LacA beta-sandwich domain › BetaGal_dom2 0.57 35.0 4.27e-01 99.3% 98.9%
3797614 3156.1.1.0 beta sandwiches › Cupredoxin-like › Cupredoxin-related › Cupredoxin-related 0.57 48.0 4.90e-01 100.0% 91.7%
3935857 3156.1.1.0 beta sandwiches › Cupredoxin-like › Cupredoxin-related › Cupredoxin-related 0.57 53.0 4.74e-01 100.0% 82.0%
3260252 11.1.1.29 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › TIG 0.56 34.0 4.06e-01 95.2% 91.6%
1219080 11.1.1.99 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › V-set 0.53 40.0 4.28e-01 84.2% 90.6%
3506911 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 39.0 3.97e-01 77.4% 100.0%
3255721 11.1.1.698 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_TgrO1 0.52 35.0 4.11e-01 95.2% 100.0%
3267141 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 36.0 4.13e-01 78.1% 98.1%
3904808 11.1.1.99 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › V-set 0.51 41.0 4.38e-01 97.9% 97.7%
3896642 11.1.1.99 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › V-set 0.50 43.0 3.64e-01 93.2% 77.1%
D3 high residues 480-535
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3hshE00 3.40.1620.70 Alpha Beta › 3-Layer(aba) Sandwich › YefM-like fold › 0.73 55.0 5.61e-01 91.1% 81.8%
5dynA01 3.40.50.11970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.64 56.0 4.60e-01 100.0% 83.0%
6kjuB01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.63 46.0 3.76e-01 82.1% 53.0%
1ywkC00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.61 48.0 3.21e-01 91.1% 51.8%
1s04A00 2.30.130.30 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › Hypothetical protein. 0.61 51.0 4.03e-01 91.1% 100.0%
7jvhC01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.61 48.0 3.08e-01 94.6% 85.6%
4oelB00 2.40.50.170 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Cysteine proteinases. Chain C 0.60 42.0 3.94e-01 73.2% 63.8%
3lmmA03 3.30.565.60 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › 0.59 46.0 3.35e-01 87.5% 96.5%
3k2tA01 3.30.505.50 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › Sigma 54 modulation/S30EA ribosomal protein, C-terminal domain 0.59 43.0 4.59e-01 83.9% 100.0%
3li9A01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.59 45.0 3.58e-01 85.7% 44.4%
1jdpA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.59 49.0 3.47e-01 94.6% 40.2%
5iu1B00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.57 45.0 3.76e-01 92.9% 59.8%
3ednA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.56 41.0 3.24e-01 83.9% 49.3%
6mavB02 2.40.50.120 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.56 41.0 3.57e-01 78.6% 55.2%
2v4jA03 3.30.413.10 Alpha Beta › 2-Layer Sandwich › Sulfite Reductase Hemoprotein; domain 1 › Sulfite Reductase Hemoprotein, domain 1 0.56 48.0 3.40e-01 100.0% 35.1%
1p0zA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.56 41.0 3.25e-01 82.1% 40.5%
3er7B00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 38.0 3.06e-01 73.2% 37.4%
6eugA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.55 47.0 2.95e-01 100.0% 30.0%
4a18O00 3.30.390.110 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.54 40.0 3.09e-01 82.1% 49.3%
5flwA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.53 46.0 2.92e-01 100.0% 32.5%
1dfuP00 2.40.240.10 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Ribosomal Protein L25; Chain P 0.53 40.0 3.47e-01 85.7% 100.0%
1ugiD00 3.10.450.20 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Bacteriophage PBS2, uracil-glycosylase inhibitor 0.53 40.0 3.61e-01 85.7% 80.5%
6todA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.52 39.0 2.55e-01 85.7% 38.6%
6dddH00 2.40.240.10 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Ribosomal Protein L25; Chain P 0.52 39.0 3.38e-01 83.9% 100.0%
8aimG01 3.10.450.20 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Bacteriophage PBS2, uracil-glycosylase inhibitor 0.51 39.0 3.55e-01 87.5% 77.8%
1dm9A00 3.10.290.10 Alpha Beta › Roll › Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A › RNA-binding S4 domain 0.51 42.0 3.49e-01 92.9% 51.0%
3tc9A02 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.51 43.0 2.74e-01 98.2% 38.7%
4lg8A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 44.0 2.79e-01 100.0% 34.8%
1ijqA01 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.51 44.0 2.91e-01 100.0% 43.3%
4by6B00 2.30.30.1020 Mainly Beta › Roll › SH3 type barrels. › CCR4-NOT complex subunit 2/3/5, C-terminal domain 0.51 39.0 2.81e-01 96.4% 28.3%
3c7xA00 2.110.10.10 Mainly Beta › 4 Propeller › Hemopexin › Hemopexin-like domain 0.51 41.0 2.88e-01 92.9% 85.2%
1gsaA01 3.40.50.20 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.50 42.0 3.37e-01 100.0% 59.4%
3h6qA00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.50 39.0 2.89e-01 89.3% 54.8%
3ck2A00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.50 39.0 2.89e-01 92.9% 72.4%
6lciA01 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.50 40.0 3.18e-01 100.0% 91.6%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3514344 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.66 56.0 4.50e-01 100.0% 62.6%
3890372 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.64 55.0 4.46e-01 100.0% 67.3%
3539914 2007.1.2.0 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.64 56.0 3.92e-01 100.0% 35.7%
5028250 5090.1.1.0 beta complex topology › Viral glycoprotein, central and dimerisation domains-like › Viral glycoprotein, central and dimerisation domains › Viral glycoprotein, central and dimerisation domains 0.63 52.0 4.29e-01 94.6% 64.8%
3516794 214.1.1.0 a+b two layers › SH2 › SH2 › SH2 0.62 52.0 4.02e-01 100.0% 55.7%
3408686 2007.1.2.31 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › LBD_receptor 0.62 52.0 3.66e-01 100.0% 41.5%
3400185 2007.1.2.31 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › LBD_receptor 0.62 52.0 3.73e-01 100.0% 40.0%
4542391 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.61 47.0 3.14e-01 87.5% 60.8%
3875076 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.60 50.0 3.83e-01 100.0% 51.0%
3414096 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.60 43.0 3.36e-01 78.6% 62.3%
4886608 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.59 47.0 3.97e-01 87.5% 100.0%
3286692 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.59 48.0 4.03e-01 92.9% 97.0%
4065495 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.58 48.0 4.04e-01 94.6% 99.0%
4618294 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.58 46.0 3.91e-01 89.3% 100.0%
4344650 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.58 47.0 3.92e-01 91.1% 100.0%
3906671 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.57 37.0 4.19e-01 76.8% 95.0%
4197939 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.57 44.0 3.76e-01 87.5% 98.9%
4399696 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.56 44.0 3.75e-01 87.5% 100.0%
4065090 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.56 44.0 3.76e-01 87.5% 100.0%
4120365 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.56 46.0 3.88e-01 94.6% 99.0%
4560015 284.2.1.0 a+b two layers › FKBP-like › Chitinase insertion domain › Chitinase insertion domain 0.56 40.0 3.69e-01 76.8% 92.0%
4926846 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.56 45.0 3.39e-01 100.0% 54.1%
3506907 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.55 39.0 3.36e-01 78.6% 58.0%
3586876 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.55 37.0 3.37e-01 76.8% 48.2%
4168875 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.55 43.0 3.75e-01 92.9% 97.9%
4128879 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.55 43.0 3.68e-01 89.3% 100.0%
3229785 2007.1.2.4 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › ANF_receptor 0.54 48.0 3.13e-01 100.0% 46.4%
4209479 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.54 45.0 3.76e-01 94.6% 99.0%
4197235 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.54 41.0 3.57e-01 87.5% 98.9%
1238016 5.1.4.20 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Glu_cyclase_2 0.54 46.0 3.09e-01 100.0% 89.3%
4080757 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.53 43.0 3.74e-01 94.6% 100.0%
4145938 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.53 45.0 3.80e-01 98.2% 97.0%
3994175 6.1.1.4 beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › Ricin_B_lectin 0.53 45.0 3.48e-01 96.4% 50.8%
4974065 4.6.1.2 beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain › PRC 0.53 44.0 4.32e-01 94.6% 85.0%
4062422 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.53 41.0 3.52e-01 87.5% 100.0%
4189981 2008.1.1.37 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NaeI 0.53 41.0 2.95e-01 91.1% 37.3%
4601397 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.52 40.0 3.43e-01 87.5% 100.0%
3491878 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.52 43.0 2.69e-01 100.0% 87.4%
4245628 3351.1.1.1 a/b three-layered sandwiches › Atg7 N-terminal domain-like › N-terminal domain in E1 enzyme Atg7 › N-terminal domain in E1 enzyme Atg7 › ATG7_N 0.51 39.0 2.86e-01 89.3% 51.1%
3762363 145.1.1.0 alpha arrays › F-box domain › F-box domain › F-box domain 0.51 41.0 2.39e-01 94.6% 14.8%
3690906 5.1.4.250 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › DUF2415 0.51 42.0 2.62e-01 100.0% 35.1%
3588305 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.50 34.0 3.03e-01 78.6% 44.9%
4875720 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.50 40.0 2.96e-01 91.1% 46.5%
D4 medium residues 278-330
PDB