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NC_054946.1__YP_010077733.1__KMC38_gp46__00046

Bact-Vir

NC_054946.1__YP_010077733.1__KMC38_gp46__00046

Identity

Accession:
NC_054946 ↗
Kingdom:
phage

Quality

82.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Bakolyvirus› Ralstonia_phage_Simangalove

TaxID: 2759710

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 243-351
PDB
Domain cluster: rep: OV032902.1__CAH0447963.1__SM033_00139__00139__D168-264
D2 high residues 355-455
PDB
Domain cluster: rep: OV032902.1__CAH0447963.1__SM033_00139__00139__D168-264
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6o38A04 2.60.120.1230 Mainly Beta › Sandwich › Jelly Rolls › 0.81 67.0 7.10e-01 98.0% 97.8%
6o38A01 2.60.120.1230 Mainly Beta › Sandwich › Jelly Rolls › 0.80 68.0 7.12e-01 95.0% 98.9%
6o38A03 2.60.120.1230 Mainly Beta › Sandwich › Jelly Rolls › 0.79 61.0 6.72e-01 90.1% 98.8%
3g5wA01 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.62 45.0 3.94e-01 76.2% 60.6%
4v02C00 2.160.20.70 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.58 48.0 4.51e-01 99.0% 73.8%
6hbeA01 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.56 45.0 4.14e-01 88.1% 84.2%
7tm7B01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.55 48.0 3.16e-01 99.0% 85.3%
3fw6A01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.53 41.0 3.98e-01 84.2% 96.6%
5gkdA02 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.52 47.0 3.39e-01 100.0% 56.1%
3frnA03 2.30.30.760 Mainly Beta › Roll › SH3 type barrels. › 0.50 26.0 3.39e-01 88.1% 96.1%
1k4zA00 2.160.20.70 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.50 45.0 3.92e-01 100.0% 65.0%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2581340 520.2.1.1 ↗ beta sandwiches › gp9 N-terminal domain-like › beta-sandwich domain in metalloprotease stcE › beta-sandwich domain in metalloprotease stcE › StcE_b-sandwich 0.80 65.0 6.97e-01 95.0% 97.7%
4663567 207.6.1.12 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C › Ice_nucleation 0.61 46.0 2.84e-01 98.0% 13.5%
3465099 1.1.11.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 0.51 41.0 4.08e-01 85.1% 97.1%
D3 medium residues 1-80
PDB
Domain cluster: rep: NC_019527.1__YP_007007770.1__F394_gp81__00081__D8-77
D4 medium residues 133-233
PDB
D5 medium residues 475-496_516-568_583-598_660-677
PDB
Domain cluster: rep: KM199771.1__AIK68527.1__Lo5R7ANS_57__00057__D358-488_526-544
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3w5nA03 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.56 42.0 3.63e-01 100.0% 51.5%
2c9aA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.53 34.0 3.01e-01 100.0% 42.6%
2wsuA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 40.0 3.73e-01 99.1% 65.5%
1zt4C01 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.51 42.0 3.62e-01 90.8% 86.6%
5lz6A00 2.60.120.680 Mainly Beta › Sandwich › Jelly Rolls › GOLD domain 0.51 39.0 3.72e-01 100.0% 69.8%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5033870 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.66 36.0 4.23e-01 99.1% 76.0%
3563064 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.59 35.0 2.83e-01 99.1% 29.0%
3499895 382.1.1.6 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › QVR 0.59 29.0 3.14e-01 91.7% 52.6%
4236582 848.1.1.1 ↗ a+b complex topology › Hsp33 domain › Hsp33 domain › Hsp33 domain › HSP33 0.52 33.0 2.61e-01 83.5% 30.4%
3925945 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.51 30.0 3.29e-01 90.8% 70.0%
D6 medium residues 497-515_569-582_599-659
PDB
Domain cluster: rep: NC_054459.1__YP_010052516.1__KEM12_gp35__00035__D285-301_360-371_393-455
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4mz2A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 41.0 3.89e-01 91.5% 70.3%
5a8iA00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.52 41.0 3.92e-01 89.4% 96.6%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3278677 72.1.1.0 ↗ beta sandwiches › gamma-Crystallin-like › gamma-Crystallin-like › gamma-Crystallin-like 0.51 40.0 4.23e-01 89.4% 96.5%