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NC_001900.2__NP_046861.1__PBI_D29_44.1__00043

Bact-Vir

NC_001900.2__NP_046861.1__PBI_D29_44.1__00043

Identity

Accession:
NC_001900 ↗
Kingdom:
phage

Quality

90.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Fromanvirus› Mycobacterium_phage_D29

TaxID: 2905674

Cluster

View cluster (4 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 4-107
PDB
Domain cluster: rep: NC_042327.1__YP_009637602.1__FGG18_gp29__00072__D2-93
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF17510.9 best GP44 155.6 6.70e-46 100.0% 95.4%
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6iomB01 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.75 36.0 4.14e-01 100.0% 62.3%
2dgxA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.65 46.0 5.05e-01 100.0% 96.2%
2f3jA02 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.63 46.0 4.70e-01 100.0% 80.6%
2e29A01 3.30.70.2280 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 40.0 4.51e-01 100.0% 92.1%
2dhaA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.60 43.0 4.08e-01 100.0% 63.4%
1gx5A03 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.60 45.0 4.35e-01 100.0% 69.7%
2cg8B02 3.30.70.560 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 7,8-Dihydro-6-hydroxymethylpterin-pyrophosphokinase HPPK 0.59 45.0 4.15e-01 100.0% 62.9%
2dt9A02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.59 43.0 4.79e-01 99.0% 98.7%
3mwbB03 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.57 39.0 4.10e-01 100.0% 77.9%
7c51A01 3.30.70.2970 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Protein of unknown function (DUF541), domain 2 0.56 49.0 4.85e-01 100.0% 96.4%
3ofgB00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.56 40.0 4.33e-01 100.0% 92.0%
2k8qA00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 41.0 3.78e-01 87.5% 60.4%
2y8yA01 3.30.70.1200 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Crispr-associated protein; domain 1 0.55 42.0 4.62e-01 100.0% 97.7%
3mgjA00 3.30.70.2690 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › LOR/SDH bifunctional enzyme, conserved domain 0.54 42.0 4.39e-01 100.0% 91.7%
4tw1B00 2.70.240.10 Mainly Beta › Distorted Sandwich › Leukocidin-like › Leukocidin/porin MspA 0.52 36.0 2.61e-01 70.2% 74.1%
6mv2A01 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 42.0 4.24e-01 92.3% 88.2%
3e8oB00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 43.0 4.42e-01 99.0% 92.0%
3bn7A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 46.0 4.71e-01 100.0% 98.0%
2pgcC01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 44.0 4.58e-01 100.0% 99.0%
2v50D07 3.30.70.1440 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain 0.52 39.0 4.11e-01 100.0% 91.6%
1y0hB00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 42.0 4.39e-01 100.0% 93.9%
5b08A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 43.0 4.40e-01 100.0% 96.0%
3bdeB00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 44.0 4.50e-01 100.0% 97.0%
7altB01 2.60.40.3510 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 45.0 3.97e-01 100.0% 95.6%
2fiuA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 42.0 4.35e-01 100.0% 96.8%
2gffA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 42.0 4.36e-01 99.0% 95.8%
5xzqF00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 45.0 4.56e-01 100.0% 97.1%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3809139 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.68 47.0 5.34e-01 100.0% 98.7%
4000270 382.1.1.6 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › QVR 0.66 37.0 3.80e-01 100.0% 58.0%
3391060 382.1.1.6 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › QVR 0.64 36.0 3.54e-01 100.0% 52.3%
3406524 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.60 32.0 3.60e-01 100.0% 65.1%
3228319 382.1.1.6 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › QVR 0.59 35.0 3.62e-01 100.0% 62.1%
3581434 11.1.1.97 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.58 27.0 3.46e-01 99.0% 73.8%
2989506 2485.3.1.3 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.57 41.0 3.04e-01 76.0% 70.5%
4982118 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.57 45.0 4.36e-01 100.0% 75.7%
3963252 304.28.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.56 47.0 4.74e-01 100.0% 91.4%
3597384 319.1.1.0 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.56 42.0 4.40e-01 97.1% 87.4%
3472646 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.56 45.0 4.52e-01 100.0% 88.6%
3816888 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.55 36.0 4.26e-01 99.0% 98.6%
419875 304.51.1.3 ↗ a+b two layers › Alpha-beta plaits › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR_assoc 0.55 42.0 4.60e-01 100.0% 96.6%
3976571 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.55 38.0 4.25e-01 100.0% 92.5%
5043596 304.15.1.0 ↗ a+b two layers › Alpha-beta plaits › Viral DNA-binding domain › Viral DNA-binding domain 0.55 46.0 4.47e-01 100.0% 82.6%
5052508 304.8.1.4 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › NikR_C 0.55 41.0 4.35e-01 100.0% 89.2%
1175282 304.10.1.1 ↗ a+b two layers › Alpha-beta plaits › RuBisCO, large subunit, small (N-terminal) domain › RuBisCO, large subunit, small (N-terminal) domain › RuBisCO_large_N 0.54 48.0 4.74e-01 100.0% 91.9%
3678036 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.54 36.0 3.95e-01 100.0% 88.7%
2989356 2485.3.1.3 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.54 39.0 2.88e-01 76.9% 71.1%
3433562 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.53 36.0 3.93e-01 100.0% 88.7%
4026673 319.1.1.0 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.53 35.0 3.79e-01 76.0% 82.1%
3387490 319.3.1.0 ↗ beta sandwiches › HSP20-like › B2 domain of PilQ › B2 domain of PilQ 0.53 33.0 3.40e-01 98.1% 63.0%
3234644 304.166.1.1 ↗ a+b two layers › Alpha-beta plaits › Nup54 ferredoxin-like domain › Nup54 ferredoxin-like domain › DAG1 0.52 46.0 4.53e-01 100.0% 94.8%
4936511 304.133.1.1 ↗ a+b two layers › Alpha-beta plaits › 26 kDa periplasmic immunogenic protein › 26 kDa periplasmic immunogenic protein › SIMPL 0.52 46.0 4.57e-01 100.0% 93.6%
3940639 304.28.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.52 46.0 3.96e-01 100.0% 97.6%
3280291 304.133.1.1 ↗ a+b two layers › Alpha-beta plaits › 26 kDa periplasmic immunogenic protein › 26 kDa periplasmic immunogenic protein › SIMPL 0.52 46.0 4.28e-01 100.0% 82.3%
4173451 5067.1.1.4 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › MMPL 0.51 45.0 2.72e-01 100.0% 14.5%
4951176 304.133.1.1 ↗ a+b two layers › Alpha-beta plaits › 26 kDa periplasmic immunogenic protein › 26 kDa periplasmic immunogenic protein › SIMPL 0.51 44.0 4.16e-01 100.0% 78.5%
3956422 3755.1.1.13 ↗ alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related › MMPL 0.50 44.0 3.80e-01 100.0% 60.6%
3466783 319.1.1.13 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › PF26144 0.50 37.0 3.35e-01 76.9% 73.6%
5053078 304.20.1.4 ↗ a+b two layers › Alpha-beta plaits › PAP/Archaeal CCA-adding enzyme, C-terminal domain › PAP/Archaeal CCA-adding enzyme, C-terminal domain › CAA_C 0.50 43.0 3.75e-01 100.0% 80.0%