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NC_024788.1__YP_009056042.1__LD11_gp277__00277

Bact-Vir

NC_024788.1__YP_009056042.1__LD11_gp277__00277

Identity

Accession:
NC_024788 ↗
Kingdom:
phage

Quality

77.7 mean pLDDT

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 15-64
PDB
CATH (58)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.79 60.0 4.89e-01 82.0% 95.7%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.77 67.0 5.73e-01 100.0% 75.6%
3egrA00 3.10.20.520 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phenylacetic acid degradation B 0.74 64.0 5.94e-01 98.0% 81.0%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.71 60.0 5.57e-01 100.0% 74.2%
1y6kR01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.70 60.0 4.79e-01 100.0% 48.0%
4ccdA01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.70 55.0 3.44e-01 96.0% 16.7%
2r1fA03 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.69 44.0 4.84e-01 76.0% 82.1%
2c00A03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.69 53.0 4.85e-01 94.0% 63.2%
1utaA00 3.30.70.1070 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sporulation related repeat 0.69 59.0 5.21e-01 100.0% 93.5%
4d05A01 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.69 50.0 4.47e-01 96.0% 52.6%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.69 57.0 4.75e-01 96.0% 57.6%
3znuA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.69 58.0 4.84e-01 100.0% 89.4%
3rjaA02 3.40.462.20 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › 0.68 56.0 3.73e-01 100.0% 37.1%
1es6A02 2.60.510.10 Mainly Beta › Sandwich › EV matrix protein fold › EV matrix protein 0.68 55.0 4.49e-01 94.0% 97.0%
1s5jA03 3.90.1600.10 Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain 0.67 57.0 4.10e-01 100.0% 77.1%
2z04B03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.67 46.0 3.20e-01 74.0% 35.5%
8os3A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.67 56.0 4.57e-01 100.0% 51.1%
2yweA04 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.66 55.0 4.35e-01 100.0% 64.9%
2e4tA01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.66 49.0 3.82e-01 94.0% 34.7%
2aehA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.66 51.0 4.21e-01 100.0% 45.8%
2oo3A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.66 54.0 3.51e-01 98.0% 21.7%
2kt4B01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.66 52.0 3.80e-01 90.0% 93.0%
2qv6A01 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.65 56.0 4.22e-01 100.0% 69.5%
4paaA04 3.30.70.1400 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Aminomethyltransferase beta-barrel domains 0.65 51.0 3.98e-01 88.0% 72.6%
1mw7A02 3.30.70.980 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › YebC, transcriptional regulation domain 0.65 49.0 4.23e-01 90.0% 50.6%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.64 51.0 3.69e-01 96.0% 89.2%
4llgM00 3.10.20.510 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNA polymerase inhibitor 0.64 50.0 5.07e-01 100.0% 96.0%
4ekuA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.64 49.0 3.82e-01 100.0% 37.6%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.64 50.0 4.24e-01 94.0% 55.3%
6jptA00 3.30.230.90 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.63 45.0 3.47e-01 78.0% 37.2%
2cs4A00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.63 49.0 4.11e-01 100.0% 47.4%
1nrjA00 3.30.450.60 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.62 45.0 3.24e-01 78.0% 74.8%
1sq2N00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 54.0 4.20e-01 100.0% 50.0%
1t4aA00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.62 47.0 4.26e-01 94.0% 100.0%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.60 47.0 4.26e-01 94.0% 65.8%
1wvqA00 3.40.1520.10 Alpha Beta › 3-Layer(aba) Sandwich › hypothetical protein tt1634 › Ta1353-like 0.60 48.0 3.47e-01 96.0% 61.3%
1whoA00 2.60.40.760 Mainly Beta › Sandwich › Immunoglobulin-like › Expansin, cellulose-binding-like domain 0.59 47.0 3.85e-01 96.0% 46.8%
2rftA02 3.90.209.20 Alpha Beta › Alpha-Beta Complex › Hemagglutinin (Ha1 Chain); Chain: A; domain 1 › Haemagglutinin, alpha/beta domain, HA1 chain 0.59 50.0 3.26e-01 100.0% 38.9%
1h3dA03 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 49.0 4.57e-01 100.0% 95.5%
7eehA01 2.60.120.620 Mainly Beta › Sandwich › Jelly Rolls › q2cbj1_9rhob like domain 0.58 44.0 2.85e-01 84.0% 77.5%
3fdjA02 2.20.28.50 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › DegV, N-terminal domain, peripheral subdomain 0.57 39.0 4.27e-01 94.0% 97.4%
2mwmA00 3.40.50.360 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Flavodoxin domain 0.57 47.0 3.38e-01 94.0% 82.8%
5e50A01 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.57 43.0 3.57e-01 88.0% 100.0%
2ckaA01 3.40.5.120 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.56 43.0 4.34e-01 90.0% 89.8%
5k3xA02 2.60.40.650 Mainly Beta › Sandwich › Immunoglobulin-like › 0.56 47.0 3.74e-01 100.0% 45.1%
7pupA01 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.56 40.0 2.78e-01 82.0% 83.7%
1rlhA02 3.40.1520.10 Alpha Beta › 3-Layer(aba) Sandwich › hypothetical protein tt1634 › Ta1353-like 0.55 46.0 3.73e-01 96.0% 76.2%
2blfA02 2.60.40.650 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 46.0 3.58e-01 96.0% 45.6%
4cvuA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.55 47.0 3.21e-01 100.0% 29.1%
3d4rE01 2.40.128.400 Mainly Beta › Beta Barrel › Lipocalin › 0.55 47.0 4.00e-01 98.0% 78.6%
6lnhB01 2.60.120.620 Mainly Beta › Sandwich › Jelly Rolls › q2cbj1_9rhob like domain 0.54 47.0 3.08e-01 98.0% 34.4%
3lb6D02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 46.0 3.87e-01 100.0% 55.4%
3pvlA02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.53 42.0 3.65e-01 100.0% 52.1%
1r9fA01 3.30.390.180 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › RNA silencing suppressor P19 0.53 41.0 3.42e-01 96.0% 56.0%
4lr4A02 2.60.120.1430 Mainly Beta › Sandwich › Jelly Rolls › 0.53 43.0 3.13e-01 100.0% 53.0%
1aw8B00 2.40.40.20 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › 0.53 45.0 3.79e-01 100.0% 54.9%
3gs9A01 6.20.110.10 Special › Other non-globular › Thrombin, subunit H › 0.52 41.0 3.64e-01 92.0% 73.4%
7xc8A02 2.60.40.760 Mainly Beta › Sandwich › Immunoglobulin-like › Expansin, cellulose-binding-like domain 0.51 37.0 3.20e-01 100.0% 45.4%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3760983 3335.1.1.3 beta barrels › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B › KCTD18_C 0.77 67.0 5.29e-01 96.0% 99.0%
199962 3115.5.1.1 a+b two layers › GP2-like › phenylacetate-CoA oxygenase subunit PaaB › phenylacetate-CoA oxygenase subunit PaaB › PaaB 0.74 64.0 5.94e-01 98.0% 81.0%
4964337 3115.5.1.1 a+b two layers › GP2-like › phenylacetate-CoA oxygenase subunit PaaB › phenylacetate-CoA oxygenase subunit PaaB › PaaB 0.73 64.0 6.24e-01 100.0% 92.7%
4448678 4.1.1.307 beta barrels › SH3 › SH3 › SH3 › PF26132 0.73 60.0 5.40e-01 98.0% 98.7%
5065205 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.73 58.0 4.34e-01 94.0% 100.0%
4962335 3115.5.1.1 a+b two layers › GP2-like › phenylacetate-CoA oxygenase subunit PaaB › phenylacetate-CoA oxygenase subunit PaaB › PaaB 0.71 61.0 5.60e-01 98.0% 78.5%
3575366 221.1.1.76 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.69 52.0 4.28e-01 100.0% 44.2%
4196230 304.28.1.0 a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.66 57.0 4.96e-01 100.0% 93.8%
3338287 221.1.1.166 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PF26130 0.66 49.0 4.61e-01 96.0% 64.6%
5079520 304.128.1.0 a+b two layers › Alpha-beta plaits › ferredoxin-like domain in periplasmic region of MacB › ferredoxin-like domain in periplasmic region of MacB 0.66 57.0 4.73e-01 98.0% 76.7%
4930766 2492.1.1.7 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.66 52.0 3.92e-01 92.0% 35.6%
4448436 304.44.1.1 a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 0.66 54.0 4.12e-01 96.0% 80.0%
5080205 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.66 52.0 5.26e-01 100.0% 94.0%
4976603 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.65 51.0 4.19e-01 94.0% 100.0%
5036839 304.24.1.0 a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.65 51.0 4.73e-01 92.0% 98.6%
5747 4007.1.1.1 a+b two layers › a+b domain in YebC-like proteins › a+b domain in YebC-like proteins › a+b domain in YebC-like proteins › Transcrip_reg 0.65 49.0 4.85e-01 90.0% 81.5%
3626327 4007.1.1.0 a+b two layers › a+b domain in YebC-like proteins › a+b domain in YebC-like proteins › a+b domain in YebC-like proteins 0.65 53.0 4.55e-01 94.0% 56.5%
3186438 4176.1.1.2 a/b three-layered sandwiches › a/b domain in CV3147-like proteins › a/b domain in CV3147-like proteins › a/b domain in CV3147-like proteins › S-Me-THD_N 0.65 50.0 3.26e-01 94.0% 17.7%
4976988 304.8.1.9 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_6 0.64 51.0 4.33e-01 92.0% 90.0%
3251473 325.1.5.1 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Ribosomal protein L10e › Ribosomal_L16 0.63 50.0 3.79e-01 96.0% 76.4%
5037842 210.2.1.1 a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain › PP2C 0.63 51.0 3.29e-01 96.0% 31.6%
3987406 3115.6.1.1 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › RpoY 0.62 55.0 4.88e-01 100.0% 78.7%
3551231 221.1.1.87 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › FERM_N_2 0.62 47.0 3.86e-01 100.0% 42.9%
3405569 221.1.1.6 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.61 50.0 3.98e-01 100.0% 42.7%
3517068 3115.1.1.6 a+b two layers › GP2-like › RplX-like › RplX-like › DUF4494 0.61 49.0 4.65e-01 100.0% 92.3%
3935404 221.1.1.76 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.60 48.0 4.04e-01 96.0% 51.1%
3620456 221.1.1.64 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Formin_GBD_N 0.60 49.0 3.96e-01 100.0% 46.4%
3211869 221.1.1.0 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.59 43.0 3.78e-01 100.0% 47.8%
3914036 221.1.1.87 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › FERM_N_2 0.59 45.0 3.72e-01 100.0% 42.9%
5047755 2492.1.1.7 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.59 45.0 3.51e-01 96.0% 49.3%
2627958 12.5.1.1 beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5 0.58 51.0 3.53e-01 100.0% 39.1%
4985088 301.9.1.1 a+b three layers › Bacillus chorismate mutase-like › HypA Ni-binding domain › HypA Ni-binding domain › HypA 0.58 46.0 3.56e-01 92.0% 48.8%
3446646 11.1.1.23 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Expansin_C 0.58 46.0 4.10e-01 96.0% 60.3%
4971169 5103.1.1.1 a/b three-layered sandwiches › Insert domain in hypothetical protein PF0380 › Insert domain in hypothetical protein PF0380 › Insert domain in hypothetical protein PF0380 › DUF5603 0.58 43.0 3.56e-01 90.0% 62.7%
3555970 12.5.1.1 beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5 0.58 50.0 3.49e-01 100.0% 38.2%
4945301 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.57 41.0 3.07e-01 82.0% 50.0%
2006900 302.4.1.0 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.57 45.0 3.79e-01 100.0% 49.0%
3618720 221.1.1.0 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.57 43.0 3.69e-01 100.0% 48.4%
3911249 221.1.1.76 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.57 47.0 3.97e-01 100.0% 68.4%
3599827 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 47.0 3.38e-01 100.0% 45.9%
4967778 329.1.1.2 a+b two layers › Prokaryotic AspRS, insert domain › Prokaryotic AspRS, insert domain › Prokaryotic AspRS, insert domain › DUF4443 0.56 38.0 3.15e-01 76.0% 87.3%
3998356 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.56 41.0 4.33e-01 82.0% 91.1%
3216210 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.55 43.0 4.31e-01 98.0% 98.0%
3582714 221.1.1.6 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.54 41.0 3.57e-01 100.0% 49.5%
3347090 221.1.1.159 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › DUF7138 0.54 44.0 3.87e-01 100.0% 85.9%
4883192 3019.1.1.1 beta sandwiches › gp11/flagellar cap protein FliD insertion domain › gp11/flagellar cap protein FliD insertion domain › gp11/flagellar cap protein FliD insertion domain › Flagellin_IN 0.54 42.0 3.37e-01 94.0% 59.0%
3974708 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.53 40.0 3.17e-01 100.0% 36.0%
3929133 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 3.37e-01 96.0% 45.3%
4966152 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.53 41.0 3.77e-01 96.0% 96.0%
3955667 302.4.1.0 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.53 43.0 3.56e-01 100.0% 47.6%
5018277 5103.1.1.0 a/b three-layered sandwiches › Insert domain in hypothetical protein PF0380 › Insert domain in hypothetical protein PF0380 › Insert domain in hypothetical protein PF0380 0.52 41.0 3.40e-01 92.0% 99.0%
4026778 304.7.1.0 a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.52 41.0 3.66e-01 94.0% 95.0%
4867320 221.1.1.66 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PIK3CG_ABD 0.52 45.0 3.59e-01 100.0% 82.4%
4968352 302.4.1.0 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.51 41.0 3.63e-01 100.0% 60.0%
3958827 205.1.1.0 a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin 0.51 38.0 3.66e-01 96.0% 98.5%