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NC_055907.1__YP_010113710.1__KNV65_gp086__00086

Bact-Vir

NC_055907.1__YP_010113710.1__KNV65_gp086__00086

Identity

Accession:
NC_055907 ↗
Kingdom:
phage

Quality

82.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Denvervirus› Enterococcus_phage_9183

TaxID: 2763102

Cluster

View cluster (8 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 216-285
PDB
Domain cluster: rep: OL774877.1__UJH95059.1__MissG1_0009__00009__D195-258
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3cddB03 3.30.1920.10 Alpha Beta › 2-Layer Sandwich › Phage tail proteins - 2 layer sandwich fold › Baseplate protein-like domains - 2 layer sandwich fold 0.83 54.0 5.82e-01 100.0% 79.7%
2c4eA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.54 40.0 2.79e-01 87.1% 93.6%
1asuA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.52 38.0 2.98e-01 78.6% 71.6%
2v4iB01 3.30.2330.10 Alpha Beta › 2-Layer Sandwich › arginine biosynthesis bifunctional protein fold › arginine biosynthesis bifunctional protein suprefamily 0.51 44.0 4.27e-01 100.0% 88.3%
6jmgB01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 43.0 3.32e-01 100.0% 96.0%
2liyA00 2.20.25.390 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › Stomagen 0.50 24.0 2.90e-01 84.3% 64.4%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3588732 3071.1.1.0 ↗ a+b complex topology › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins 0.83 69.0 6.73e-01 100.0% 82.7%
3499912 10.35.1.0 ↗ beta sandwiches › jelly-roll › ER-derived vesicles protein Erv41p lumenal domain › ER-derived vesicles protein Erv41p lumenal domain 0.59 42.0 2.98e-01 77.1% 24.4%
5039685 212.1.1.60 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Nre_N 0.54 46.0 3.36e-01 100.0% 58.2%
1807411 101.1.2.215 ↗ alpha arrays › HTH › HTH › winged helix domain › CmlS_C 0.51 35.0 3.01e-01 98.6% 41.3%
4679523 103.15.1.2 ↗ alpha arrays › RuvA-C › Mitoribosomal protein mS23 › Mitoribosomal protein mS23 › MRP-S25 0.51 36.0 2.62e-01 75.7% 51.4%
3783573 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 35.0 3.08e-01 74.3% 100.0%
D2 high residues 673-754
PDB
Domain cluster: rep: MW073017.1__QPB08539.1__X__00060__D1038-1127
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3gw6D02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.70 64.0 5.05e-01 100.0% 80.7%
3gudA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.66 58.0 5.06e-01 95.1% 87.4%
1ciiA02 3.30.305.10 Alpha Beta › 2-Layer Sandwich › Colicin Ia; domain 2 › Colicin Ia; domain 2 0.65 36.0 3.33e-01 100.0% 44.6%
1tvzA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.55 31.0 2.56e-01 90.2% 29.9%
1hyuA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 44.0 3.50e-01 92.7% 98.4%
3gw6A02 1.20.5.1240 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Endo-n-acetylneuraminidase 0.53 31.0 3.70e-01 84.1% 90.4%
3bezA02 3.40.1750.10 Alpha Beta › 3-Layer(aba) Sandwich › peptide peptidase (sppa) fold › peptide peptidase (sppa) like domain 0.52 40.0 3.75e-01 95.1% 67.0%
4fdtB00 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.52 40.0 2.57e-01 81.7% 93.7%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3252576 3240.1.1.1 ↗ alpha arrays › Intramolecular chaperone domain in virus tail spike protein › Intramolecular chaperone domain in virus tail spike protein › Intramolecular chaperone domain in virus tail spike protein › Peptidase_S74 0.83 78.0 6.29e-01 100.0% 64.8%
3632382 109.4.1.73 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Uso1_p115_head 0.58 30.0 1.92e-01 97.6% 9.8%
3616203 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.52 39.0 3.74e-01 96.3% 69.5%
3778175 5052.1.1.1 ↗ alpha complex topology › Proton glutamate symport protein › Proton glutamate symport protein › Proton glutamate symport protein › SDF 0.51 46.0 2.86e-01 98.8% 77.6%
5051484 101.1.2.30 ↗ alpha arrays › HTH › HTH › winged helix domain › TrmB 0.51 44.0 3.65e-01 95.1% 73.1%
3800501 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.51 46.0 3.80e-01 100.0% 89.0%
4485921 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.51 46.0 4.05e-01 100.0% 92.5%
3932006 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.51 45.0 4.05e-01 100.0% 84.3%
4969864 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.51 46.0 3.93e-01 100.0% 96.2%
5027984 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.50 45.0 3.96e-01 100.0% 86.7%
4994900 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.50 45.0 3.94e-01 100.0% 88.8%
5079691 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.50 46.0 3.85e-01 100.0% 82.2%
4941487 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.50 46.0 4.01e-01 100.0% 92.5%
4303742 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.50 46.0 4.00e-01 100.0% 92.5%
3633537 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.50 46.0 3.75e-01 100.0% 95.9%
4661346 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.50 44.0 3.70e-01 100.0% 71.7%
5048161 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.50 46.0 3.80e-01 100.0% 89.3%
D3 medium residues 102-182
PDB
Domain cluster: rep: MK448900.1__QBX26070.1__Javan290_0016__00049__D83-163
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3adyA00 3.55.50.60 Alpha Beta › 3-Layer(bab) Sandwich › Phage tail protein beta-alpha-beta fold › DotD protein 0.72 61.0 5.62e-01 100.0% 73.5%
2p5zX02 3.55.50.10 Alpha Beta › 3-Layer(bab) Sandwich › Phage tail protein beta-alpha-beta fold › Baseplate protein-like domains 0.65 57.0 5.43e-01 100.0% 85.6%
4kxvA02 3.40.50.970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains 0.50 39.0 3.04e-01 86.4% 89.2%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3588731 3070.1.1.0 ↗ a+b complex topology › N0 domain in phage tail proteins and secretins-like › N0 domain in phage tail proteins and secretins › N0 domain in phage tail proteins and secretins 0.81 73.0 7.08e-01 100.0% 88.9%
D4 medium residues 189-204_300-362
PDB
Domain cluster: rep: NC_000896.1__NP_050163.1__phiadhp55__00055__D438-504
D5 medium residues 408-468
PDB
Domain cluster: rep: NC_019449.1__YP_007002359.1__F368_gp20__00020__D364-427
D6 medium residues 493-591
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2htaA00 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.57 48.0 3.48e-01 93.9% 83.8%
4hbrA00 3.10.450.360 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 40.0 3.62e-01 74.7% 74.3%
3u1wA01 3.10.450.360 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 50.0 4.08e-01 100.0% 84.2%
4q1vA01 2.140.10.30 Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Dipeptidylpeptidase IV, N-terminal domain 0.55 48.0 3.16e-01 99.0% 45.5%
2yfoA01 2.70.98.60 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › alpha-galactosidase from lactobacil brevis 0.55 44.0 3.23e-01 90.9% 87.0%
1f49A05 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.55 47.0 3.44e-01 97.0% 88.3%
5inhA04 3.40.570.10 Alpha Beta › 3-Layer(aba) Sandwich › Extracellular Endonuclease; Chain A › Extracellular Endonuclease, subunit A 0.52 46.0 3.30e-01 97.0% 95.9%
1mpgA01 3.30.310.20 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › DNA-3-methyladenine glycosylase AlkA, N-terminal domain 0.52 32.0 3.06e-01 74.7% 53.6%
3mswA00 2.40.128.720 Mainly Beta › Beta Barrel › Lipocalin › 0.52 44.0 3.97e-01 96.0% 87.8%
3q1nA00 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.51 42.0 3.00e-01 88.9% 86.1%
2xe4A02 2.130.10.120 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Prolyl oligopeptidase, N-terminal domain 0.51 44.0 3.12e-01 100.0% 49.7%
4bv4R00 3.80.10.10 Alpha Beta › Alpha-Beta Horseshoe › Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) › Ribonuclease Inhibitor 0.51 46.0 2.98e-01 100.0% 30.7%
6jhpA01 2.70.98.60 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › alpha-galactosidase from lactobacil brevis 0.51 43.0 3.12e-01 96.0% 86.5%
2ovrB02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.50 44.0 3.10e-01 100.0% 57.2%
4jpdA00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.50 33.0 3.27e-01 72.7% 61.5%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3590950 79.1.1.0 ↗ beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain 0.68 60.0 5.12e-01 100.0% 60.6%
4348598 3894.1.1.6 ↗ beta meanders › O-GlcNAc transferase GtfA beta-meander domain › O-GlcNAc transferase GtfA beta-meander domain › O-GlcNAc transferase GtfA beta-meander domain › Glyco_trans_A_1 0.58 49.0 4.36e-01 98.0% 65.2%
3412380 12.3.1.13 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Glyco_hydro_38C 0.57 39.0 2.77e-01 70.7% 70.2%
4928574 241.11.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › YjbR-like › YjbR-like 0.57 37.0 4.00e-01 72.7% 75.0%
3982482 79.1.1.9 ↗ beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Gp34_trimer 0.57 44.0 4.55e-01 100.0% 91.1%
5074996 844.1.1.2 ↗ beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › LOR 0.57 45.0 3.80e-01 85.9% 77.6%
3611079 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.57 41.0 3.16e-01 74.7% 64.3%
3191276 12.3.1.3 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Aldose_epim 0.55 47.0 3.20e-01 92.9% 88.6%
1385068 12.3.1.25 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Glyco_hydro_36N 0.55 44.0 3.21e-01 90.9% 83.7%
3972580 331.1.1.3 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › AlkA_N 0.55 32.0 3.50e-01 76.8% 70.0%
3939966 292.2.1.0 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain 0.54 39.0 3.76e-01 74.7% 75.5%
3536769 5.1.4.57 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PALB2_WD40 0.53 46.0 3.18e-01 100.0% 43.8%
3486200 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.53 45.0 3.04e-01 100.0% 47.0%
3912012 844.1.1.4 ↗ beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Scramblase 0.52 43.0 3.49e-01 90.9% 81.0%
4031020 12.3.1.3 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Aldose_epim 0.52 43.0 3.06e-01 92.9% 88.8%
185414 3347.1.1.1 ↗ beta meanders › Uncharacterized protein BF3112 › Uncharacterized protein BF3112 › Uncharacterized protein BF3112 › DUF3836 0.52 44.0 4.00e-01 96.0% 87.7%
4039533 3321.1.1.1 ↗ a+b two layers › Meander beta sheet domain in fatty acid synthase subunit beta › Meander beta sheet domain in fatty acid synthase subunit beta › Meander beta sheet domain in fatty acid synthase subunit beta › FAS_meander 0.52 46.0 3.89e-01 96.0% 84.4%
3499456 5.1.7.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 10-bladed › Sortilin-Vps10 0.52 45.0 2.88e-01 99.0% 53.1%
3225830 844.1.1.4 ↗ beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Scramblase 0.51 43.0 3.41e-01 90.9% 77.5%
3653236 3347.1.1.0 ↗ beta meanders › Uncharacterized protein BF3112 › Uncharacterized protein BF3112 › Uncharacterized protein BF3112 0.51 39.0 3.38e-01 81.8% 86.1%
2722572 3894.1.1.3 ↗ beta meanders › O-GlcNAc transferase GtfA beta-meander domain › O-GlcNAc transferase GtfA beta-meander domain › O-GlcNAc transferase GtfA beta-meander domain › GtfB_M 0.51 46.0 4.17e-01 100.0% 79.3%
3495079 77.3.1.5 ↗ beta meanders › open-sided beta-meander › CPAP G-box domain › CPAP G-box domain › MORN_DRC7 0.50 44.0 3.29e-01 99.0% 49.8%
3546354 5.1.4.164 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_VPS8 0.50 44.0 2.98e-01 99.0% 49.9%