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NC_025470.1__YP_009104108.1__S140_110__00107

Bact-Vir

NC_025470.1__YP_009104108.1__S140_110__00107

Identity

Accession:
NC_025470 ↗
Kingdom:
phage

Quality

79.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Shewanella_sp._phage_1/40

TaxID: 1458860

Cluster

View cluster (3 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 51-146
PDB
Domain cluster: rep: IMGVR_UViG_3300026311_000146-3300026311-Ga0209723_100647318__D183-300
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF14550.12 best Peptidase_S78_2 35.1 1.90e-08 100.0% 70.3%
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4noiA01 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.60 41.0 4.06e-01 99.0% 66.0%
1y7pB01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.55 40.0 4.39e-01 100.0% 91.3%
6dw1A00 2.70.170.10 Mainly Beta › Distorted Sandwich › Acetylcholine Binding Protein; Chain: A, › Neurotransmitter-gated ion-channel ligand-binding domain 0.54 38.0 3.03e-01 93.8% 33.8%
4g65A04 3.30.70.1450 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Regulator of K+ conductance, C-terminal domain 0.54 37.0 3.84e-01 100.0% 75.8%
2ek0A00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.53 35.0 3.59e-01 90.6% 70.0%
2fgeA04 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.53 46.0 3.49e-01 100.0% 80.8%
3l60A01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.53 46.0 3.60e-01 100.0% 82.7%
3ue2A01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.53 42.0 4.42e-01 100.0% 95.5%
2rilA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 42.0 4.29e-01 100.0% 89.5%
3i4hX01 3.30.70.1890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 47.0 4.29e-01 100.0% 91.4%
3maeA00 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.52 45.0 3.51e-01 100.0% 78.2%
3bf4A01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 47.0 4.71e-01 100.0% 99.0%
3qjlA01 3.30.70.1890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 46.0 4.34e-01 100.0% 93.4%
4gx0B03 3.30.70.1450 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Regulator of K+ conductance, C-terminal domain 0.52 34.0 3.79e-01 99.0% 84.6%
2kf2A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.51 45.0 3.83e-01 100.0% 74.3%
6h05A00 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.51 44.0 3.43e-01 100.0% 78.4%
3czhA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.51 42.0 2.72e-01 89.6% 81.5%
2zogA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 45.0 3.75e-01 100.0% 97.1%
2j5aA00 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.51 42.0 4.09e-01 100.0% 82.1%
5lhrA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.51 40.0 3.76e-01 100.0% 70.1%
3eniC00 2.50.10.10 Mainly Beta › Clam › Bacteriochlorophyll-a Protein › Bacteriochlorophyll A 0.50 44.0 3.05e-01 100.0% 27.5%
6zzmA01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.50 44.0 3.41e-01 100.0% 83.3%
1cqmA00 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.50 41.0 4.10e-01 100.0% 87.8%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3224729 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.59 38.0 3.91e-01 91.7% 66.3%
5054484 304.11.1.0 ↗ a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase 0.57 34.0 3.85e-01 100.0% 81.4%
3798241 11.12.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like 0.56 39.0 2.97e-01 92.7% 30.9%
3481119 11.12.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like 0.56 41.0 3.18e-01 91.7% 34.1%
3936858 11.12.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD,Neur_chan_memb 0.56 39.0 2.54e-01 92.7% 15.6%
4610509 304.45.1.1 ↗ a+b two layers › Alpha-beta plaits › 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK › 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK › HPPK 0.56 37.0 3.21e-01 100.0% 41.2%
3739994 304.12.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.55 44.0 4.27e-01 100.0% 78.1%
3926245 11.12.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD 0.54 39.0 2.98e-01 92.7% 33.5%
4116832 4261.1.1.1 ↗ a+b two layers › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA_C 0.53 37.0 3.88e-01 99.0% 80.0%
3622783 11.12.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like 0.52 39.0 2.95e-01 92.7% 33.3%
5012991 1.1.9.23 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › DUF473 0.52 39.0 3.64e-01 91.7% 64.2%
3576847 11.12.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD 0.52 39.0 2.95e-01 92.7% 33.0%
5052888 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.51 40.0 3.69e-01 100.0% 64.8%
4972140 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.51 36.0 3.19e-01 100.0% 48.0%