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NC_029067.1__YP_009222985.1__VPLG_00136__00136

Bact-Vir

NC_029067.1__YP_009222985.1__VPLG_00136__00136

Identity

Accession:
NC_029067 ↗
Kingdom:
phage

Quality

89.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_eugene_12A10

TaxID: 573172

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 high residues 2-49
PDB
Domain cluster: representative
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3kyaA02 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.66 53.0 3.26e-01 100.0% 22.9%
2rkuA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.65 49.0 4.23e-01 89.6% 93.3%
4o38A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.63 53.0 4.36e-01 100.0% 95.8%
1u5qA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.63 50.0 4.14e-01 93.8% 90.6%
3ifvC00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.63 44.0 2.87e-01 77.1% 43.8%
4fr4D01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.63 47.0 3.64e-01 89.6% 65.9%
4uy9A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.62 48.0 4.07e-01 91.7% 93.3%
2acxA02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.62 48.0 4.06e-01 91.7% 93.4%
1qypA00 2.20.25.10 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.61 47.0 4.50e-01 87.5% 75.4%
3lltA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.61 50.0 4.21e-01 100.0% 84.9%
5ajqA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.61 47.0 4.07e-01 93.8% 96.5%
4iupA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.60 50.0 4.41e-01 93.8% 72.2%
3a7fA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.60 46.0 3.97e-01 93.8% 95.7%
1g7sA02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.59 43.0 3.39e-01 79.2% 75.9%
3utoA02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.58 48.0 3.66e-01 100.0% 96.1%
2hw6A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.58 47.0 4.04e-01 100.0% 93.2%
5a4eC00 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.57 47.0 3.02e-01 100.0% 30.8%
4o5vA03 2.30.30.90 Mainly Beta › Roll › SH3 type barrels. › Ferrous iron transport protein A (FeoA) 0.57 40.0 3.54e-01 77.1% 69.7%
1fotA02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.57 46.0 3.73e-01 100.0% 77.6%
4m4zA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.57 45.0 4.57e-01 93.8% 93.6%
4chjA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 43.0 3.35e-01 89.6% 40.3%
2p12A01 2.40.380.10 Mainly Beta › Beta Barrel › FomD barrel-like fold › FomD-like 0.57 42.0 2.99e-01 83.3% 33.5%
2dmoA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.57 45.0 4.15e-01 93.8% 75.0%
1jkmA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.57 39.0 2.43e-01 77.1% 25.7%
3vwaA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.57 46.0 3.94e-01 100.0% 92.2%
4cciA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.56 39.0 2.58e-01 77.1% 57.6%
6v55A02 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.56 40.0 2.79e-01 79.2% 45.6%
2v1qA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.56 45.0 4.24e-01 93.8% 85.0%
1lckA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.55 44.0 4.21e-01 93.8% 84.7%
4fw1A02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.55 41.0 4.00e-01 93.8% 75.9%
2x6nD00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.54 40.0 2.85e-01 85.4% 68.0%
5o99A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.54 43.0 4.10e-01 95.8% 81.7%
3lxrF00 1.10.4120.20 Mainly Alpha › Orthogonal Bundle › SopE-like GEF fold › 0.54 38.0 2.68e-01 79.2% 68.5%
6o15A02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.53 36.0 2.37e-01 72.9% 61.8%
3fkaB00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 39.0 3.25e-01 100.0% 80.8%
2f9zC00 3.30.1330.200 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › 0.52 42.0 3.12e-01 100.0% 99.4%
3c1yA01 3.40.1700.10 Alpha Beta › 3-Layer(aba) Sandwich › YojJ-like (1 › DNA integrity scanning protein, DisA, N-terminal domain 0.51 37.0 2.76e-01 79.2% 78.3%
4msxA02 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.51 38.0 2.45e-01 91.7% 86.1%
1lbvA01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.51 38.0 2.86e-01 87.5% 55.1%
2l33A00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.50 40.0 3.41e-01 97.9% 60.4%
4b9dB01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 36.0 2.93e-01 77.1% 83.9%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3475247 4184.1.1.1 ↗ beta barrels › MFPT repeat › MFPT repeat › MFPT repeat › DM9 0.75 53.0 4.70e-01 79.2% 51.4%
3974395 2.8.1.0 ↗ beta barrels › OB-fold › mu transposases-C › mu transposases-C 0.71 55.0 5.05e-01 87.5% 93.8%
26896 4184.1.1.2 ↗ beta barrels › MFPT repeat › MFPT repeat › MFPT repeat › MFP2b 0.68 48.0 4.04e-01 79.2% 43.0%
3785770 708.1.2.0 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like 0.66 52.0 4.38e-01 93.8% 87.8%
3577425 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.65 53.0 2.98e-01 100.0% 14.1%
3892479 206.1.1.71 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase, Kdo 0.64 49.0 3.00e-01 91.7% 24.5%
4002838 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.63 53.0 2.86e-01 97.9% 8.8%
5041112 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.63 51.0 4.69e-01 100.0% 81.4%
3408588 4.1.1.243 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_Myosin-XVIIIa 0.61 49.0 4.46e-01 93.8% 64.3%
3739064 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 49.0 4.53e-01 93.8% 76.9%
4949552 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.61 47.0 4.24e-01 89.6% 64.3%
3937930 206.1.1.10 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Choline_kinase 0.60 49.0 2.97e-01 100.0% 23.4%
3737815 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.60 49.0 3.11e-01 100.0% 28.5%
4329083 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.60 49.0 3.07e-01 100.0% 26.5%
3777793 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.60 48.0 2.98e-01 100.0% 23.7%
3200379 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.59 48.0 2.89e-01 100.0% 33.0%
5001502 2003.1.5.13 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth 0.59 45.0 3.00e-01 100.0% 19.4%
4927858 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.59 45.0 4.40e-01 100.0% 80.0%
3639223 206.1.1.71 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase, Kdo 0.58 47.0 2.93e-01 100.0% 30.6%
3609256 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.57 46.0 3.92e-01 93.8% 63.5%
3264545 5.1.3.117 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Kelch_1+Kelch_KLHDC2_KLHL20_DRC7 0.57 46.0 2.86e-01 100.0% 25.5%
3237428 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.56 44.0 2.75e-01 100.0% 26.7%
3598499 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.56 45.0 3.37e-01 93.8% 32.9%
3612090 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.56 46.0 4.32e-01 93.8% 76.7%
3632355 2007.1.3.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like 0.55 45.0 3.03e-01 100.0% 33.2%
4952059 809.2.1.0 ↗ a+b two layers › BLIP-like › BT0923-like › BT0923-like 0.55 44.0 3.89e-01 100.0% 75.0%
3242469 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.54 42.0 2.54e-01 100.0% 28.8%
4306285 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.54 41.0 3.82e-01 93.8% 65.7%
3404445 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.53 37.0 2.71e-01 79.2% 51.8%
3614684 267.1.1.0 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain 0.53 42.0 3.18e-01 95.8% 79.3%
3463266 4325.1.1.0 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like 0.53 39.0 3.67e-01 81.2% 93.3%
3976843 9.11.1.1 ↗ beta barrels › Lipocalins/Streptavidin › YdhA-like › YdhA-like › MliC 0.53 43.0 3.66e-01 100.0% 68.5%
3933198 206.1.1.9 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.53 43.0 2.84e-01 100.0% 35.9%
3231587 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.53 38.0 3.24e-01 81.2% 73.3%
185388 2484.1.1.9 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.53 40.0 2.72e-01 85.4% 63.7%
3928988 2484.1.1.9 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.53 38.0 2.61e-01 83.3% 56.0%
3606532 2484.6.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Periplasmic domain of ExbD/TolR › Periplasmic domain of ExbD/TolR 0.52 40.0 3.31e-01 85.4% 48.9%
3212409 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.52 36.0 2.68e-01 75.0% 65.5%
3926417 2484.1.1.9 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.51 37.0 2.71e-01 83.3% 81.9%
4396772 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.50 35.0 2.68e-01 81.2% 74.7%
3920985 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.50 40.0 2.48e-01 97.9% 87.1%