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NC_054464.1__YP_010052835.1__KE334_gp24__00024

Bact-Vir

NC_054464.1__YP_010052835.1__KE334_gp24__00024

Identity

Accession:
NC_054464 ↗
Kingdom:
phage

Quality

61.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Gofduovirus› Edwardsiella_phage_Edno5

TaxID: 2419942

Cluster

View cluster (2 members)

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 212-270
PDB
D2 medium residues 42-60_73-113
PDB
Domain cluster: representative
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1pu1A00 3.30.300.100 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › MTH677-like 0.65 43.0 3.76e-01 100.0% 45.1%
2p8jA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 40.0 2.81e-01 81.7% 20.4%
3ua0A00 6.20.280.10 Special › Other non-globular › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › 0.54 38.0 3.53e-01 95.0% 58.2%
3fn9A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 43.0 3.44e-01 93.3% 55.0%
8gk4C02 3.30.70.1430 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain 0.51 39.0 3.37e-01 100.0% 52.1%
4afkA00 2.40.160.100 Mainly Beta › Beta Barrel › Porin › 0.51 42.0 2.62e-01 100.0% 44.2%
4noiA01 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.51 37.0 3.19e-01 100.0% 47.6%
1dw9A02 3.30.1160.10 Alpha Beta › 2-Layer Sandwich › Cyanate Lyase; Chain: A, domain 2 › Cyanate lyase, C-terminal domain 0.50 38.0 3.65e-01 81.7% 76.5%
3l4gC01 3.30.1370.240 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.50 39.0 3.42e-01 93.3% 61.0%
5e1qB01 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.50 37.0 2.44e-01 81.7% 55.3%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3943681 1.1.13.47 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Dit_like 0.94 88.0 6.32e-01 100.0% 48.0%
4976198 878.1.1.1 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 0.70 45.0 4.03e-01 100.0% 47.1%
5074340 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.67 52.0 3.97e-01 100.0% 36.4%
4946 878.1.1.1 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 0.65 43.0 3.76e-01 100.0% 45.1%
5078624 878.1.1.1 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 0.62 44.0 3.64e-01 100.0% 42.9%
5072826 878.1.1.0 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 0.61 42.0 3.68e-01 100.0% 48.3%
164141 2003.1.5.66 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.60 40.0 2.81e-01 81.7% 20.4%
4981531 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.58 40.0 3.18e-01 98.3% 32.6%
3382026 304.55.1.20 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Helitron_like_N, REP_ORF2-G2P 0.56 40.0 3.03e-01 100.0% 30.9%
4993017 878.1.1.1 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 0.56 41.0 3.56e-01 100.0% 49.5%
3914348 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.55 34.0 2.77e-01 96.7% 28.8%
6519 265.1.1.1 ↗ a+b two layers › RNA bacteriophage capsid protein › RNA bacteriophage capsid protein › RNA bacteriophage capsid protein › Levi_coat 0.55 33.0 2.73e-01 76.7% 28.5%
4004108 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.54 40.0 2.80e-01 86.7% 29.6%
5075397 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.54 38.0 3.09e-01 100.0% 36.8%
984477 878.1.1.1 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 0.54 38.0 3.33e-01 100.0% 47.5%
5074889 878.1.1.1 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 0.53 38.0 3.36e-01 100.0% 49.5%
2907089 283.2.1.1 ↗ a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › GPW_gp25 0.52 43.0 3.52e-01 91.7% 80.4%
3272379 327.5.1.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins 0.52 37.0 3.34e-01 93.3% 52.8%
1158292 11.1.1.14 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Glyco_hydro_2 0.52 43.0 3.45e-01 93.3% 55.5%
D3 medium residues 114-164
PDB
Domain cluster: representative
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4w64B00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.78 68.0 4.76e-01 100.0% 36.9%
1y12B00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.77 66.0 4.69e-01 100.0% 40.4%
3eaaA00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.77 66.0 4.68e-01 100.0% 38.9%
4hkhA00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.76 67.0 4.77e-01 100.0% 41.6%
3q0bX00 2.30.280.10 Mainly Beta › Roll › PUA domain-like › SRA-YDG 0.74 65.0 4.65e-01 100.0% 35.1%
1jb0E00 2.30.30.50 Mainly Beta › Roll › SH3 type barrels. › 0.63 45.0 4.16e-01 96.1% 58.0%
2l89A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.62 50.0 4.10e-01 100.0% 46.3%
5b08A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 44.0 3.71e-01 100.0% 42.0%
3ne5C02 2.40.30.170 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Efflux pump adaptor protein, beta barrel domain 0.58 44.0 3.61e-01 100.0% 43.1%
5c0pA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.57 47.0 3.02e-01 100.0% 29.6%
3ub1A01 3.10.450.540 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.57 48.0 3.60e-01 100.0% 52.9%
3ct9A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 47.0 3.76e-01 100.0% 45.8%
6toaE01 2.40.10.270 Mainly Beta › Beta Barrel › Thrombin, subunit H › Bacteriophage SPP1 head-tail adaptor protein 0.56 38.0 3.20e-01 94.1% 38.8%
2yfoA01 2.70.98.60 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › alpha-galactosidase from lactobacil brevis 0.55 44.0 2.84e-01 100.0% 38.3%
3kxtA00 2.30.30.610 Mainly Beta › Roll › SH3 type barrels. › Chromatin protein Cren7 0.54 38.0 3.76e-01 92.2% 71.4%
5xyiU00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.52 36.0 3.01e-01 74.5% 58.8%
2gjvA00 3.30.2000.10 Alpha Beta › 2-Layer Sandwich › STM4215-like › Phage tail protein-like 0.51 42.0 3.20e-01 98.0% 50.7%
1boqA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.50 41.0 3.31e-01 94.1% 81.3%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3943681 1.1.13.47 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Dit_like 0.96 91.0 6.23e-01 100.0% 34.0%
3974464 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.89 76.0 6.64e-01 100.0% 64.0%
4988102 1.1.13.47 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Dit_like 0.80 66.0 5.20e-01 100.0% 43.6%
3966479 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.79 69.0 4.83e-01 100.0% 42.4%
4929634 1.1.5.47 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_tube_2 0.77 67.0 4.22e-01 100.0% 20.4%
3941539 1.1.13.40 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_min_tail 0.76 60.0 4.82e-01 100.0% 43.8%
2832217 1.1.5.24 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_T4_gp19 0.76 66.0 4.79e-01 100.0% 46.5%
3969448 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.75 60.0 4.83e-01 100.0% 44.8%
5003885 1.1.5.24 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_T4_gp19 0.73 63.0 4.59e-01 100.0% 45.5%
3573739 4.1.1.85 ↗ beta barrels › SH3 › SH3 › SH3 › MTR4_beta-barrel 0.71 57.0 4.44e-01 90.2% 40.0%
3164699 1.1.13.33 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › DNA_circ_N 0.71 59.0 4.66e-01 100.0% 43.5%
2832216 1.1.5.24 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_T4_gp19 0.71 61.0 4.36e-01 100.0% 45.1%
3231301 4.1.1.85 ↗ beta barrels › SH3 › SH3 › SH3 › MTR4_beta-barrel 0.70 55.0 4.27e-01 90.2% 38.3%
3622641 4.1.1.85 ↗ beta barrels › SH3 › SH3 › SH3 › MTR4_beta-barrel 0.69 57.0 4.39e-01 98.0% 40.0%
3472685 3324.1.1.2 ↗ extended segments › Helical arch in Ski2-like helicases › Helical arch in Ski2-like helicases › Helical arch in Ski2-like helicases 0.68 57.0 3.69e-01 100.0% 19.3%
5052888 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.68 58.0 4.44e-01 100.0% 41.6%
3604610 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.68 52.0 4.87e-01 100.0% 67.7%
3506174 327.11.1.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) 0.65 44.0 4.06e-01 72.5% 84.3%
3416648 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.65 38.0 4.54e-01 78.4% 96.7%
3738927 4.1.1.85 ↗ beta barrels › SH3 › SH3 › SH3 › MTR4_beta-barrel 0.65 53.0 4.12e-01 98.0% 40.8%
3646876 4.25.1.0 ↗ beta barrels › SH3 › Auxin response factor dimerization domain and ancillary domain › Auxin response factor dimerization domain and ancillary domain 0.65 55.0 4.57e-01 100.0% 80.0%
3937478 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.63 53.0 4.22e-01 98.0% 58.2%
4444422 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.60 50.0 3.81e-01 94.1% 46.3%
4156749 3234.1.1.2 ↗ a+b two layers › GerBC protein › GerBC protein › GerBC protein › Spore_GerAC, Spore_GerAC_N 0.60 50.0 3.24e-01 100.0% 34.7%
3179973 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.59 41.0 3.71e-01 100.0% 52.9%
3330406 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.59 41.0 3.99e-01 90.2% 63.3%
4455935 304.102.1.7 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › Pus10_C 0.59 45.0 3.08e-01 100.0% 20.4%
4600281 4186.1.1.1 ↗ beta barrels › Ribosomal protein L21p › Ribosomal protein L21p › Ribosomal protein L21p › Ribosomal_L21p 0.57 47.0 3.82e-01 98.0% 67.9%
2126271 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.56 47.0 3.67e-01 100.0% 42.6%
3253266 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.56 46.0 3.79e-01 100.0% 47.6%
3657432 220.1.1.205 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_PHS1 0.55 43.0 3.32e-01 90.2% 49.6%
167841 4.26.1.1 ↗ beta barrels › SH3 › Chromatin protein Cren7 › Chromatin protein Cren7 › Cren7 0.55 41.0 3.99e-01 98.0% 71.7%
4965857 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.54 43.0 4.01e-01 96.1% 78.3%
3515716 4010.1.1.2 ↗ a+b complex topology › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › RNA_pol_Rpb2_1,RNA_pol_Rpb2_3 0.54 45.0 2.87e-01 100.0% 21.5%
4336111 4186.1.1.1 ↗ beta barrels › Ribosomal protein L21p › Ribosomal protein L21p › Ribosomal protein L21p › Ribosomal_L21p 0.54 43.0 3.62e-01 98.0% 72.4%
1125236 4186.1.1.1 ↗ beta barrels › Ribosomal protein L21p › Ribosomal protein L21p › Ribosomal protein L21p › Ribosomal_L21p 0.53 41.0 3.48e-01 100.0% 71.6%
3602459 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.53 44.0 3.47e-01 100.0% 43.5%
5047753 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.52 43.0 3.44e-01 100.0% 43.5%
4999156 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.51 42.0 3.35e-01 100.0% 43.5%
3253267 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.51 40.0 3.58e-01 100.0% 57.6%