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NC_054802.1__YP_010063155.1__KIY76_gp76__00076

Bact-Vir

NC_054802.1__YP_010063155.1__KIY76_gp76__00076

Identity

Accession:
NC_054802 ↗
Kingdom:
phage

Quality

92.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Backyardiganvirus› Mycobacterium_phage_Miramae

TaxID: 2517961

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 2-64
PDB
Domain cluster: rep: NC_054814.1__YP_010064259.1__KI247_gp25__00075__D2-61
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2dmyA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.73 51.0 4.35e-01 76.2% 47.4%
3k6qA02 3.30.160.620 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.72 60.0 5.38e-01 93.7% 86.5%
3bh1A03 3.40.140.40 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Domain of unknown function (DUF1846), C-terminal subdomain 0.65 58.0 4.38e-01 98.4% 89.7%
2z3gB00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.61 46.0 3.66e-01 100.0% 40.2%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.61 46.0 4.54e-01 100.0% 77.3%
4bs9A05 3.30.160.660 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.60 54.0 4.33e-01 96.8% 68.4%
2v6eA03 1.10.443.30 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Telomere resolvase 0.59 46.0 3.19e-01 85.7% 70.2%
3nd1A02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.58 43.0 3.66e-01 100.0% 46.4%
2qsdB02 3.50.100.10 Alpha Beta › 3-Layer(bba) Sandwich › protein il1583 fold › protein il1583 domain 0.58 43.0 4.04e-01 100.0% 64.1%
4a18X01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.58 50.0 4.71e-01 100.0% 92.4%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.57 43.0 3.82e-01 100.0% 56.5%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.57 46.0 4.39e-01 100.0% 76.3%
1flmA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 45.0 3.65e-01 100.0% 47.5%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.54 42.0 3.74e-01 100.0% 57.4%
2npnA02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.54 39.0 3.39e-01 100.0% 45.9%
7ob9B01 3.90.1110.10 Alpha Beta › Alpha-Beta Complex › Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; domain 3 › RNA polymerase Rpb2, domain 2 0.53 43.0 3.25e-01 100.0% 64.1%
1l3lA01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.52 39.0 2.89e-01 81.0% 94.1%
7bvaA02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.51 40.0 2.79e-01 87.3% 43.4%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3515207 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.84 60.0 5.25e-01 74.6% 56.7%
4043415 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.83 60.0 3.50e-01 74.6% 11.1%
3258455 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.81 57.0 4.65e-01 73.0% 54.1%
3780194 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.81 59.0 3.84e-01 76.2% 20.8%
4954188 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.80 59.0 4.37e-01 96.8% 32.9%
3387312 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.79 59.0 4.48e-01 96.8% 35.7%
5047755 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.77 60.0 4.54e-01 96.8% 37.1%
4935672 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.77 57.0 4.31e-01 96.8% 35.0%
4637265 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.77 57.0 4.27e-01 96.8% 33.3%
4930766 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.76 58.0 4.44e-01 96.8% 37.8%
5003527 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.75 56.0 4.17e-01 96.8% 33.3%
4033865 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.73 55.0 4.14e-01 96.8% 34.5%
3338423 3131.1.1.2 ↗ a+b two layers › FYR domain › FYR domain › FYR domain › FYRN 0.71 60.0 4.53e-01 93.7% 48.0%
4977431 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.71 54.0 5.42e-01 100.0% 81.5%
5083269 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.66 59.0 4.34e-01 98.4% 81.9%
4180400 2492.1.1.25 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › DUF1846_C 0.64 56.0 4.20e-01 96.8% 83.9%
4989863 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.64 58.0 4.37e-01 96.8% 48.6%
5080205 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.64 47.0 5.16e-01 100.0% 98.0%
4939739 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.61 51.0 5.28e-01 100.0% 100.0%
3829568 109.4.1.1383 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, Eplus_motif, E_motif 0.59 51.0 2.90e-01 96.8% 15.4%
3411558 302.1.1.1 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.58 49.0 3.88e-01 98.4% 52.1%
3994984 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.57 48.0 4.81e-01 100.0% 100.0%
5081134 3986.2.1.0 ↗ a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.57 41.0 4.24e-01 93.7% 85.0%
3905094 302.1.1.1 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.56 47.0 3.81e-01 100.0% 51.9%
3213931 302.1.1.1 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.56 46.0 3.82e-01 100.0% 53.8%
3242062 3680.1.1.1 ↗ a+b complex topology › Zinc finger FYVE domain-containing protein 9 C-terminal domain › Zinc finger FYVE domain-containing protein 9 C-terminal domain › Zinc finger FYVE domain-containing protein 9 C-terminal domain › SARA_C 0.55 38.0 2.90e-01 71.4% 52.0%
4192191 167.1.1.1 ↗ alpha arrays › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal_S7 0.54 46.0 3.44e-01 95.2% 55.6%
4375028 264.2.1.0 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.53 46.0 3.72e-01 100.0% 96.8%
3440477 2484.1.1.15 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › GDA1_CD39 0.53 44.0 3.96e-01 98.4% 66.3%