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MN096362.1__QDK01932.1__SEA_VIBAKI_52__00052

Bact-Vir

MN096362.1__QDK01932.1__SEA_VIBAKI_52__00052

Identity

Accession:
MN096362 ↗
Kingdom:
phage

Quality

75.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Berryhillviridae› Vibakivirus› Arthrobacter_phage_Vibaki

TaxID: 2593333

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 14-85
PDB
Domain cluster: rep: NC_048028.1__YP_009807793.1__HOT82_gp097__00097__D58-122
CATH (42)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2p84A02 2.30.30.290 Mainly Beta › Roll › SH3 type barrels. › YopX-like domains 0.71 52.0 5.22e-01 100.0% 76.7%
2qmiA02 2.40.128.210 Mainly Beta › Beta Barrel › Lipocalin › Pab87 octamerisation domain 0.68 55.0 4.91e-01 87.5% 86.0%
2jeuA02 2.170.200.10 Mainly Beta › Beta Complex › Regulatory Protein E2; Chain: A; Domain 2 › Papillomavirus E2 early protein domain 0.64 43.0 3.93e-01 70.8% 75.2%
3zuaA01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.64 52.0 4.29e-01 100.0% 49.6%
3zx7A02 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.63 47.0 3.91e-01 81.9% 97.1%
4r3dA03 2.60.120.1680 Mainly Beta › Sandwich › Jelly Rolls › 0.63 45.0 3.74e-01 100.0% 40.9%
1ei5A03 2.40.128.50 Mainly Beta › Beta Barrel › Lipocalin › 0.63 51.0 4.64e-01 93.1% 96.1%
4ggtB00 2.40.128.30 Mainly Beta › Beta Barrel › Lipocalin › Avidin-like 0.61 48.0 4.31e-01 88.9% 100.0%
3qijB03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.60 46.0 4.33e-01 83.3% 78.7%
2gcjA01 2.30.29.150 Mainly Beta › Roll › PH-domain like › 0.60 46.0 3.86e-01 84.7% 63.4%
3zypA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.60 52.0 3.77e-01 100.0% 59.9%
3gd0A02 3.30.920.50 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Beta-1,3-glucanase, C-terminal domain 0.60 48.0 4.24e-01 90.3% 80.4%
1h4rA03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.59 45.0 4.27e-01 84.7% 81.3%
1txdA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.59 45.0 3.89e-01 84.7% 70.2%
2yk0A03 1.20.58.1930 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 46.0 3.26e-01 84.7% 55.5%
2zxdA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.58 41.0 3.81e-01 75.0% 74.7%
3isxA02 2.40.30.40 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 0.58 51.0 4.79e-01 98.6% 100.0%
4o5vA03 2.30.30.90 Mainly Beta › Roll › SH3 type barrels. › Ferrous iron transport protein A (FeoA) 0.57 50.0 4.95e-01 98.6% 96.1%
1z24A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 46.0 3.56e-01 95.8% 66.1%
2wssA01 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.57 48.0 4.42e-01 100.0% 72.0%
1qmyA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.56 39.0 3.16e-01 100.0% 34.6%
2qa1A02 3.30.70.2450 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 40.0 3.91e-01 84.7% 69.6%
1ggpB02 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.56 42.0 3.51e-01 80.6% 100.0%
2jiiA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.56 46.0 4.00e-01 90.3% 86.4%
6oqrA01 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.55 47.0 4.37e-01 100.0% 75.6%
2ktyA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.55 42.0 3.44e-01 83.3% 73.9%
3a54A01 2.40.50.340 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 37.0 3.50e-01 72.2% 82.2%
3fqmA01 2.20.25.210 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › Hepatitis C NS5A, domain 1B 0.54 39.0 4.17e-01 95.8% 90.2%
2e87A02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 41.0 3.10e-01 84.7% 77.4%
1yzbA01 3.90.70.40 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.54 45.0 3.90e-01 100.0% 59.7%
3o4hA01 2.130.10.150 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Peptidase/esterase 'gauge' domain 0.53 41.0 2.75e-01 84.7% 95.0%
3nm6B00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.53 40.0 2.97e-01 86.1% 93.9%
3rf9B02 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.52 38.0 2.59e-01 77.8% 94.4%
1xd3C00 3.40.532.10 Alpha Beta › 3-Layer(aba) Sandwich › Ubiquitin C-terminal Hydrolase UCH-l3 › Peptidase C12, ubiquitin carboxyl-terminal hydrolase 0.52 44.0 3.20e-01 100.0% 85.0%
2qu8A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 37.0 2.79e-01 76.4% 86.6%
3wirA03 2.60.420.10 Mainly Beta › Sandwich › Maltose phosphorylase, domain 3 › Maltose phosphorylase, domain 3 0.52 41.0 4.18e-01 86.1% 100.0%
3asiA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 42.0 3.35e-01 100.0% 62.9%
2qq6A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.51 39.0 3.42e-01 83.3% 100.0%
5zl6A01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.51 45.0 3.58e-01 100.0% 66.2%
3a7sA00 3.40.532.10 Alpha Beta › 3-Layer(aba) Sandwich › Ubiquitin C-terminal Hydrolase UCH-l3 › Peptidase C12, ubiquitin carboxyl-terminal hydrolase 0.51 42.0 3.19e-01 100.0% 84.8%
2wkkA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.50 41.0 3.42e-01 100.0% 75.3%
1n7vA01 2.105.10.10 Mainly Beta › 3 Propeller › Pseudo beta propeller › Pseudo beta propeller 0.50 37.0 2.84e-01 80.6% 45.8%
ECOD (61)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3972956 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.70 54.0 4.33e-01 100.0% 42.1%
4966534 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 46.0 5.38e-01 87.5% 100.0%
4938404 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.67 43.0 4.89e-01 87.5% 87.3%
3590122 4999.1.1.1 ↗ beta barrels › YopX, C-terminal domain-like › YopX, C-terminal domain-like › YopX, C-terminal domain-like › YopX 0.67 47.0 4.98e-01 83.3% 83.1%
5002449 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 45.0 5.06e-01 88.9% 92.7%
4982334 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 44.0 5.00e-01 91.7% 90.9%
4078246 9.4.1.1 ↗ beta barrels › Lipocalins/Streptavidin › D-aminopeptidase, middle and C-terminal domains › D-aminopeptidase, middle and C-terminal domains › DAP_B 0.66 53.0 5.29e-01 88.9% 100.0%
5056706 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.65 44.0 5.09e-01 91.7% 100.0%
5023740 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.65 43.0 5.00e-01 87.5% 98.0%
3925754 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.64 43.0 3.58e-01 79.2% 37.8%
3476015 220.1.1.160 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_MADD 0.63 48.0 4.44e-01 83.3% 74.7%
3480535 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 49.0 4.33e-01 84.7% 66.7%
3173787 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 48.0 4.12e-01 84.7% 81.7%
3290662 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.63 51.0 4.28e-01 100.0% 50.8%
3509362 220.1.1.160 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_MADD 0.63 49.0 4.49e-01 84.7% 76.6%
3579987 220.1.1.160 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_MADD 0.62 48.0 4.19e-01 84.7% 65.5%
4430761 3804.1.1.1 ↗ alpha bundles › CRISPR-Cas system RNase C2c2 N-terminal domain › CRISPR-Cas system RNase C2c2 N-terminal domain › CRISPR-Cas system RNase C2c2 N-terminal domain › Cas13a_endoribonuclease 0.62 40.0 3.08e-01 94.4% 29.1%
3389668 220.1.1.160 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_MADD 0.61 47.0 4.26e-01 84.7% 72.0%
3427234 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.61 53.0 3.71e-01 100.0% 34.3%
3929729 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.61 47.0 3.48e-01 84.7% 71.3%
3468148 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.61 53.0 3.93e-01 100.0% 46.7%
3404845 220.1.1.22 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › FERM_C 0.61 47.0 4.30e-01 84.7% 76.8%
5036616 4.1.1.13 ↗ beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd 0.60 47.0 4.80e-01 95.8% 87.1%
3533183 220.1.1.22 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › FERM_C 0.60 46.0 4.14e-01 83.3% 70.0%
3512735 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.60 46.0 3.29e-01 84.7% 61.3%
3726931 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.59 45.0 3.95e-01 83.3% 84.5%
4967397 4.1.1.13 ↗ beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd 0.59 45.0 4.74e-01 94.4% 93.8%
3991137 5.1.4.8 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › CNH 0.58 44.0 2.81e-01 80.6% 17.6%
3275302 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 46.0 4.48e-01 93.1% 77.5%
3823449 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.58 50.0 3.37e-01 100.0% 51.7%
3762030 219.1.1.14 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Josephin 0.57 48.0 4.17e-01 100.0% 60.8%
4273414 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.57 50.0 5.07e-01 100.0% 97.1%
3652949 5.1.5.85 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40_RFWD3 0.57 41.0 2.71e-01 81.9% 18.3%
4572703 101.1.9.6 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › KilA-N 0.57 43.0 3.58e-01 83.3% 86.7%
3292420 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.57 49.0 4.53e-01 100.0% 75.6%
3973553 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.56 48.0 4.89e-01 100.0% 97.1%
4854958 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.56 48.0 4.36e-01 100.0% 70.8%
4184958 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.56 48.0 4.52e-01 100.0% 78.8%
4038642 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.56 48.0 4.91e-01 100.0% 97.1%
3199895 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.56 48.0 4.36e-01 100.0% 71.6%
4128405 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.56 47.0 4.84e-01 98.6% 95.7%
4047241 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.56 48.0 4.36e-01 100.0% 71.6%
4204303 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.55 47.0 4.42e-01 100.0% 75.6%
4526316 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.55 49.0 4.47e-01 100.0% 73.7%
4111597 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.55 45.0 4.73e-01 98.6% 100.0%
5039064 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.55 43.0 2.71e-01 84.7% 80.5%
4163711 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.55 46.0 4.42e-01 97.2% 78.8%
3824503 5.1.4.550 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Kelch_FKB95 0.55 43.0 2.83e-01 83.3% 45.0%
3968619 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.55 41.0 2.71e-01 81.9% 19.3%
4512995 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.55 47.0 4.81e-01 100.0% 98.6%
4087314 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.54 45.0 4.37e-01 100.0% 82.5%
3643520 5.1.3.142 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Beta-prop_AT5G49610-like 0.54 48.0 3.09e-01 95.8% 95.9%
4316004 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.54 47.0 4.51e-01 100.0% 82.4%
3219185 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.54 45.0 3.74e-01 100.0% 69.7%
3893973 10.1.1.17 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Laminin_G_2 0.54 45.0 3.54e-01 100.0% 65.1%
5073568 512.1.1.1 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st 0.53 40.0 2.98e-01 83.3% 46.3%
3241660 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.53 46.0 3.80e-01 100.0% 96.3%
3482451 10.1.1.17 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Laminin_G_2 0.51 43.0 3.31e-01 100.0% 57.4%
3244229 227.1.1.11 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Hus1 0.51 38.0 3.24e-01 81.9% 70.4%
4941125 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.50 35.0 3.08e-01 72.2% 71.3%
3441723 5.1.3.118 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3 0.50 38.0 2.57e-01 81.9% 41.7%