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NC_070762.1__YP_010648711.1__PP302_gp002__00002

Bact-Vir

NC_070762.1__YP_010648711.1__PP302_gp002__00002

Identity

Accession:
NC_070762 ↗
Kingdom:
phage

Quality

54.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Sixamavirus› Gordonia_phage_Sixama

TaxID: 2653271

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 medium residues 41-131
PDB
Domain cluster: rep: NC_031927.1__YP_009323018.1__BOW86_gp085__00085__D3-79
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01541.31 best GIY-YIG 28.7 1.80e-06 82.4% 70.5%
CATH (7)
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 72.0 7.25e-01 97.8% 100.0%
1yd0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.73 56.0 5.73e-01 93.4% 84.3%
3iylU02 1.10.287.1520 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.56 26.0 3.35e-01 80.2% 75.5%
6w6vE01 3.30.70.3250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribonuclease P, Pop5 subunit 0.53 46.0 3.94e-01 98.9% 100.0%
3llkA01 1.20.120.1960 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › QSOX sulfhydryl oxidase domain 0.52 38.0 3.72e-01 100.0% 69.4%
2jmuA01 2.40.320.10 Mainly Beta › Beta Barrel › Hypothetical Protein Pfu-838710-001 › Hypothetical Protein Pfu-838710-001 0.52 46.0 3.54e-01 100.0% 84.5%
3hn0A02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.50 37.0 3.65e-01 86.8% 73.5%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
77927 821.1.1.1 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.81 73.0 7.25e-01 96.7% 98.9%
4974405 821.1.1.0 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.77 64.0 6.46e-01 98.9% 90.0%
3363261 821.1.1.1 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.67 56.0 4.92e-01 90.1% 77.0%
4346148 821.1.1.12 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › PF29812 0.66 57.0 5.18e-01 95.6% 69.6%
5041530 821.1.1.4 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › DUF123 0.61 53.0 4.77e-01 97.8% 85.4%
3414473 323.1.1.6 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Carn_acyltransf 0.59 45.0 2.79e-01 82.4% 37.0%
3727193 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.57 28.0 3.53e-01 95.6% 82.0%
4932257 10.28.1.1 ↗ beta sandwiches › jelly-roll › Jelly-roll domain in Zinc finger protein ZPR1 › Jelly-roll domain in Zinc finger protein ZPR1 › jr-ZPR1 0.54 37.0 3.56e-01 70.3% 71.2%
3660962 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.54 41.0 3.70e-01 82.4% 98.5%
5000700 304.57.1.1 ↗ a+b two layers › Alpha-beta plaits › Rpp14/Pop5-like › Rpp14/Pop5-like › RNase_P_Rpp14 0.53 44.0 4.18e-01 90.1% 98.2%
3856202 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.52 46.0 3.20e-01 100.0% 91.5%
3785807 2008.2.1.1 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.50 36.0 3.17e-01 75.8% 87.8%
185720 3397.1.1.0 ↗ a+b complex topology › Tic22 › Tic22 › Tic22 0.50 41.0 3.96e-01 93.4% 85.2%