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NC_053511.1__YP_010013478.1__J4U00_gp125__00130

Bact-Vir

NC_053511.1__YP_010013478.1__J4U00_gp125__00130

Identity

Accession:
NC_053511 ↗
Kingdom:
phage

Quality

86.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vilmaviridae› Bromdenvirus› Mycobacterium_phage_DyoEdafos

TaxID: 2599860

Cluster

Singleton — not in a non-trivial cluster

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 2-56
PDB
Domain cluster: representative
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1qltA03 3.40.462.10 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › FAD-linked oxidases, C-terminal domain 0.81 71.0 4.60e-01 96.4% 53.7%
3n5fA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.70 63.0 4.93e-01 100.0% 98.2%
3iacC01 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.69 49.0 2.97e-01 76.4% 48.5%
2dbbA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.68 58.0 4.98e-01 100.0% 81.7%
4pcqA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.68 60.0 5.24e-01 100.0% 88.1%
6lpnA03 3.30.70.2190 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.68 57.0 4.61e-01 98.2% 89.5%
2lxxA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.67 53.0 3.88e-01 100.0% 32.2%
3ptyA02 2.60.120.940 Mainly Beta › Sandwich › Jelly Rolls › EmbC, C-terminal domain, subdomain 2 0.67 58.0 4.08e-01 100.0% 37.1%
1i1gA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.66 56.0 5.10e-01 100.0% 94.8%
4u9cA01 2.40.128.250 Mainly Beta › Beta Barrel › Lipocalin › 0.64 54.0 4.28e-01 100.0% 89.5%
5kfzA04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.64 53.0 4.26e-01 100.0% 51.2%
2mheA00 3.30.70.2400 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Uncharacterised protein PF13773, DUF4170 0.64 55.0 5.05e-01 100.0% 81.1%
4lbhA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.64 55.0 4.66e-01 100.0% 95.7%
4mmoA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 53.0 3.86e-01 100.0% 97.6%
8d8lF01 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.61 51.0 4.07e-01 100.0% 79.7%
3nwgA02 3.30.70.1710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › BMC (bacterial microcompartment) domain 0.61 53.0 4.40e-01 100.0% 77.2%
1mwqA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.59 50.0 4.22e-01 100.0% 91.0%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.58 46.0 4.29e-01 100.0% 69.7%
3r7wB02 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.57 43.0 3.46e-01 83.6% 39.0%
1vqyB01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 49.0 4.16e-01 100.0% 97.9%
6jptA00 3.30.230.90 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.56 42.0 3.28e-01 81.8% 37.2%
2v9kA04 3.30.70.3190 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 46.0 3.86e-01 100.0% 97.2%
2q9kA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 41.0 3.06e-01 80.0% 87.8%
3n6xA03 3.30.1490.270 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.54 36.0 3.66e-01 90.9% 67.9%
2v1lA00 3.10.450.430 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Protein of unknown function DUF2787 0.54 39.0 2.96e-01 76.4% 72.1%
1k12A00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.53 43.0 3.29e-01 100.0% 36.1%
3q13A01 2.60.40.2130 Mainly Beta › Sandwich › Immunoglobulin-like › F-spondin domain 0.52 44.0 3.10e-01 100.0% 80.6%
6ztgA01 3.30.70.1070 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sporulation related repeat 0.52 40.0 3.78e-01 96.4% 100.0%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3721482 304.6.1.1 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › FAD-oxidase_C 0.79 68.0 4.27e-01 96.4% 44.6%
4011512 304.6.1.0 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain 0.75 66.0 4.07e-01 96.4% 42.3%
4929768 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.72 65.0 5.84e-01 100.0% 96.0%
5035588 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.72 63.0 5.74e-01 100.0% 94.7%
3216210 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.71 55.0 5.69e-01 100.0% 96.0%
4961378 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.69 60.0 5.17e-01 100.0% 84.4%
4947263 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.67 58.0 5.30e-01 100.0% 94.7%
5068045 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.67 58.0 5.26e-01 100.0% 96.0%
3512390 304.163.1.0 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.66 56.0 4.96e-01 100.0% 98.8%
3815659 223.2.1.1 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Profilin 0.65 44.0 3.28e-01 83.6% 26.4%
4996284 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.65 56.0 4.81e-01 100.0% 78.9%
5011383 304.163.1.0 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.65 59.0 5.73e-01 100.0% 96.7%
3356117 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.65 55.0 3.47e-01 100.0% 19.0%
5000987 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.65 54.0 5.02e-01 100.0% 98.7%
4025669 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.65 55.0 4.78e-01 100.0% 95.6%
3538625 304.7.1.4 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors › S8_pro-domain 0.65 53.0 4.64e-01 92.7% 100.0%
4164962 304.28.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.64 55.0 4.86e-01 100.0% 89.4%
5070107 304.56.1.0 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like 0.63 54.0 5.10e-01 100.0% 98.6%
4962335 3115.5.1.1 ↗ a+b two layers › GP2-like › phenylacetate-CoA oxygenase subunit PaaB › phenylacetate-CoA oxygenase subunit PaaB › PaaB 0.63 51.0 4.87e-01 100.0% 78.5%
3996298 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.61 51.0 4.61e-01 98.2% 97.5%
3974688 4325.1.1.0 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like 0.61 40.0 4.16e-01 78.2% 74.0%
3795358 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.60 51.0 4.68e-01 98.2% 97.3%
3600531 4012.3.1.0 ↗ a+b two layers › SSHS domain › SSHS domain in CRISPR-associated endonuclease Cas9 › SSHS domain in CRISPR-associated endonuclease Cas9 0.60 51.0 5.21e-01 100.0% 100.0%
3928208 304.163.1.0 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.60 51.0 4.69e-01 100.0% 97.3%
3993298 304.163.1.1 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › R1_ABCA1 0.60 52.0 4.62e-01 100.0% 93.8%
3284477 304.12.1.2 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › MgtC_SapB_C 0.59 49.0 4.40e-01 100.0% 97.6%
5053714 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.58 48.0 3.79e-01 100.0% 58.5%
3277566 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.58 48.0 4.44e-01 100.0% 97.3%
3597641 304.163.1.0 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.58 47.0 4.41e-01 100.0% 98.7%
3390313 304.4.1.53 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › R1_ABCA1 0.57 48.0 4.30e-01 100.0% 90.6%
3397248 304.8.1.49 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › R1_ABCA1 0.57 48.0 4.13e-01 100.0% 97.9%
4996336 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.57 48.0 4.14e-01 100.0% 81.1%
3528332 304.163.1.1 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › R1_ABCA1 0.57 46.0 4.28e-01 98.2% 97.3%
3732370 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.57 49.0 4.84e-01 100.0% 93.3%
3479364 304.163.1.0 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.56 47.0 4.23e-01 98.2% 96.2%
3598887 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.56 47.0 4.33e-01 100.0% 96.0%
3493644 10.32.1.203 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Seipin 0.56 47.0 3.42e-01 100.0% 47.3%
3715563 304.163.1.1 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › R1_ABCA1 0.56 45.0 4.24e-01 96.4% 100.0%
3593012 304.163.1.0 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.55 46.0 4.26e-01 100.0% 93.3%
3281602 379.1.1.0 ↗ few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors 0.55 39.0 4.08e-01 100.0% 91.7%
3591488 304.163.1.1 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › R1_ABCA1 0.52 42.0 3.97e-01 100.0% 96.0%