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NC_048665.1__YP_009833534.1__HWB20_gp15__00015

Bact-Vir

NC_048665.1__YP_009833534.1__HWB20_gp15__00015

Identity

Accession:
NC_048665 ↗
Kingdom:
phage

Quality

90.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Sherbrookevirus› Clostridium_phage_phiCDHM14

TaxID: 1522091

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 31-114
PDB
Domain cluster: rep: IMGVR_UViG_2728369326_000001-2728369326-2730033527__D111-184
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF24032.2 best YQBQ 47.3 2.70e-12 98.8% 26.9%
D2 high residues 276-387
PDB
Domain cluster: rep: OP753453.1__WAB24442.1__X__00067__D80-189
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4avrA00 2.40.40.10 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › RlpA-like domain 0.77 62.0 6.71e-01 92.0% 100.0%
3d30A01 2.40.40.10 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › RlpA-like domain 0.72 64.0 6.55e-01 99.1% 98.1%
1hd5A00 2.40.40.10 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › RlpA-like domain 0.71 64.0 5.12e-01 95.5% 100.0%
ECOD (27)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4623574 1.1.2.13 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › 3D 0.88 73.0 7.73e-01 94.6% 96.0%
5083293 1.1.2.13 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › 3D 0.88 75.0 7.73e-01 98.2% 94.3%
3282133 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.78 72.0 6.00e-01 96.4% 100.0%
4419943 1.1.2.9 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › DPBB_1 0.77 64.0 6.81e-01 95.5% 98.0%
3695373 1.1.2.41 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › PF28663 0.77 71.0 6.36e-01 99.1% 94.6%
4116949 1.1.2.13 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › 3D 0.76 72.0 5.67e-01 99.1% 61.9%
4294281 1.1.2.43 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › PF31189 0.76 68.0 6.91e-01 93.8% 100.0%
20940 1.1.2.5 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › Glyco_hydro_45 0.75 68.0 5.37e-01 95.5% 100.0%
3190316 1.1.2.5 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › Glyco_hydro_45 0.73 67.0 5.21e-01 97.3% 100.0%
349867 1.1.2.9 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › DPBB_1 0.71 64.0 6.45e-01 98.2% 95.5%
3010131 1.1.2.9 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › DPBB_1 0.70 62.0 6.34e-01 96.4% 97.2%
4370157 1.1.2.9 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › DPBB_1 0.70 64.0 5.89e-01 99.1% 87.4%
3265817 1.1.2.33 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › PF29515 0.69 64.0 6.42e-01 100.0% 99.1%
3954167 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.68 50.0 5.43e-01 89.3% 90.5%
3377609 4.1.1.75 ↗ beta barrels › SH3 › SH3 › SH3 › NdhS 0.67 29.0 4.27e-01 89.3% 100.0%
3783660 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.65 50.0 5.31e-01 96.4% 91.0%
3278347 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.64 53.0 5.25e-01 87.5% 91.3%
3772228 1.1.2.40 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › PEX6_vert_N 0.64 54.0 5.16e-01 96.4% 77.7%
3406944 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.63 53.0 4.90e-01 98.2% 72.1%
3071125 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.62 52.0 5.19e-01 98.2% 88.7%
4048983 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.61 51.0 5.29e-01 98.2% 99.0%
4964768 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 33.0 4.31e-01 97.3% 100.0%
4943991 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.60 48.0 4.76e-01 86.6% 90.8%
4976340 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.59 47.0 4.60e-01 86.6% 94.4%
3708356 3156.1.1.0 ↗ beta sandwiches › Cupredoxin-like › Cupredoxin-related › Cupredoxin-related 0.55 33.0 3.73e-01 96.4% 78.8%
3675511 4.1.1.75 ↗ beta barrels › SH3 › SH3 › SH3 › NdhS 0.54 33.0 3.86e-01 93.8% 86.3%
3456496 4.1.1.75 ↗ beta barrels › SH3 › SH3 › SH3 › NdhS 0.51 33.0 3.30e-01 93.8% 62.6%
D3 high residues 391-513
PDB
Domain cluster: rep: MF001361.1__ASZ77376.1__X__00001__D369-485
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF05382.20 best Amidase_5 24.1 4.30e-05 91.1% 65.5%
PF00877.26 NLPC_P60 108.3 2.50e-31 87.8% 100.0%
D4 medium residues 119-139_193-248
PDB
Domain cluster: rep: AY855346.1__AAZ32270.1__X__00023__D109-128_185-219
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF24032.2 best YQBQ 35.6 9.50e-09 97.4% 18.7%
D5 medium residues 145-189
PDB
Domain cluster: representative
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2x8xX03 3.10.20.310 Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac 0.61 46.0 3.80e-01 82.2% 94.0%
3vskA01 3.90.1310.10 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) 0.61 43.0 3.09e-01 75.6% 82.7%
3ltoA01 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.57 42.0 3.10e-01 100.0% 40.0%
2oluA01 3.90.1310.20 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › 0.55 43.0 3.32e-01 86.7% 73.7%
3mwmA02 3.30.1490.190 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ferric-uptake regulator, C-terminal dimerisarion domain 0.54 38.0 3.73e-01 82.2% 92.3%
4ky9P00 3.40.930.10 Alpha Beta › 3-Layer(aba) Sandwich › Mannitol-specific EII; Chain A › Mannitol-specific EII; Chain A 0.54 36.0 2.37e-01 75.6% 45.1%
1wghA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.54 40.0 3.32e-01 82.2% 97.6%
1wiaA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.53 39.0 3.40e-01 80.0% 97.1%
3m62B00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 38.0 3.36e-01 82.2% 98.6%
2qbuA01 3.40.1010.10 Alpha Beta › 3-Layer(aba) Sandwich › Cobalt-precorrin-4 Transmethylase; domain 1 › Tetrapyrrole methylase, N-terminal domain 0.51 42.0 3.14e-01 100.0% 42.4%
2oodA01 2.30.40.10 Mainly Beta › Roll › Urease, subunit C; domain 1 › Urease, subunit C, domain 1 0.51 42.0 3.08e-01 100.0% 94.3%
2qsxA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.50 39.0 3.30e-01 100.0% 93.6%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4960129 212.1.1.0 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like 0.71 61.0 4.23e-01 100.0% 43.1%
3432937 3121.1.1.8 ↗ a+b duplicates or obligate multimers › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › POTRA1_3_Toc75 0.61 44.0 3.63e-01 77.8% 92.9%
4270774 212.1.1.3 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › GHMP_kinases_N 0.61 47.0 3.45e-01 100.0% 37.5%
3740185 386.1.1.16 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › Hat1_N 0.58 52.0 3.95e-01 100.0% 74.3%
3884920 2008.2.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.58 46.0 3.19e-01 91.1% 36.3%
3191173 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 39.0 4.00e-01 80.0% 97.5%
4957877 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.55 39.0 3.46e-01 77.8% 100.0%
3425922 3121.1.1.8 ↗ a+b duplicates or obligate multimers › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › POTRA1_3_Toc75 0.52 37.0 3.19e-01 84.4% 92.2%
3943767 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.51 37.0 3.25e-01 91.1% 51.8%