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KJ743987.1__AII27755.1__phiLM21_p003__00003

Bact-Vir

KJ743987.1__AII27755.1__phiLM21_p003__00003

Identity

Accession:
KJ743987 ↗
Kingdom:
phage

Quality

87.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Sinorhizobium_phage_phiLM21

TaxID: 1524882

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 52-122
PDB
Domain cluster: representative
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ffgA00 3.30.720.20 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Protein of unknown function DUF1797 0.68 57.0 5.57e-01 95.8% 93.8%
1faoA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.67 44.0 3.90e-01 70.4% 48.0%
1eazA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.66 46.0 4.04e-01 71.8% 50.5%
3fehA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.64 44.0 3.61e-01 70.4% 42.7%
2j7qA00 3.90.70.120 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.62 49.0 3.51e-01 90.1% 37.2%
2dx0A00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.61 48.0 4.11e-01 90.1% 52.1%
2lf2A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.61 43.0 3.35e-01 77.5% 93.1%
2dx0B01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.60 45.0 4.42e-01 85.9% 74.7%
1v5uA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.60 41.0 3.53e-01 71.8% 47.0%
3i9v700 3.30.920.80 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › NADH-quinone oxidoreductase, subunit 15 0.60 51.0 4.26e-01 97.2% 74.8%
1v89A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.59 41.0 3.48e-01 73.2% 51.7%
2af5A01 2.40.128.160 Mainly Beta › Beta Barrel › Lipocalin › C1 set domains (antibody constant domain-like) 0.56 38.0 4.21e-01 70.4% 98.1%
6hgcA01 3.40.532.10 Alpha Beta › 3-Layer(aba) Sandwich › Ubiquitin C-terminal Hydrolase UCH-l3 › Peptidase C12, ubiquitin carboxyl-terminal hydrolase 0.56 44.0 3.29e-01 87.3% 83.2%
1bakA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 40.0 3.42e-01 100.0% 46.2%
1ci3M02 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.54 35.0 3.73e-01 87.3% 79.3%
2o62A02 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.54 45.0 3.71e-01 95.8% 70.8%
1ri6A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.54 42.0 2.78e-01 88.7% 37.8%
2x3hA00 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.54 37.0 2.24e-01 71.8% 10.6%
2d73A01 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.53 40.0 2.74e-01 83.1% 98.9%
3c4bA02 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.53 43.0 4.42e-01 100.0% 92.5%
2p18A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.53 44.0 3.07e-01 100.0% 61.5%
2m4lA00 2.40.128.360 Mainly Beta › Beta Barrel › Lipocalin › 0.53 40.0 3.61e-01 81.7% 82.8%
1mgtA01 3.30.160.70 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Methylated DNA-protein cysteine methyltransferase domain 0.52 47.0 4.38e-01 100.0% 98.9%
3k6yA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.52 35.0 3.28e-01 70.4% 88.0%
4uy8X00 2.30.170.40 Mainly Beta › Roll › Ribosomal Protein L24e; Chain: T; › Ribosomal protein L28/L24 0.52 28.0 2.82e-01 80.3% 49.4%
7qryB01 2.60.120.920 Mainly Beta › Sandwich › Jelly Rolls › SPRY domain 0.51 44.0 3.51e-01 100.0% 59.5%
4rbnA01 3.10.450.330 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.51 44.0 3.67e-01 98.6% 65.1%
2g1lA00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.51 41.0 3.71e-01 93.0% 77.7%
1auvA01 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.51 35.0 3.67e-01 78.9% 85.0%
ECOD (32)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3968900 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.70 48.0 3.96e-01 70.4% 50.0%
4929844 2.1.1.135 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF3592 0.70 49.0 4.51e-01 73.2% 75.6%
3270411 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.69 47.0 3.93e-01 73.2% 43.5%
3487898 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.68 45.0 3.62e-01 70.4% 36.9%
4332239 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.67 46.0 3.70e-01 71.8% 40.0%
3222575 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.67 48.0 3.25e-01 81.7% 20.8%
3887656 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.67 60.0 4.93e-01 100.0% 54.6%
3214782 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.66 57.0 4.76e-01 97.2% 57.6%
3743988 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.65 45.0 3.68e-01 71.8% 43.2%
3222321 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.65 48.0 3.32e-01 85.9% 22.4%
3174481 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.64 44.0 3.32e-01 70.4% 37.5%
3934183 214.1.1.9 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.61 52.0 4.62e-01 95.8% 69.5%
3499345 4325.1.1.0 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like 0.60 43.0 4.10e-01 90.1% 64.7%
4129953 325.1.7.3 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › Apocytochr_F_C 0.59 37.0 3.83e-01 88.7% 67.7%
3579362 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.59 52.0 4.54e-01 100.0% 78.2%
4044230 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.59 48.0 3.66e-01 93.0% 52.8%
3256082 220.1.1.153 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_TRF2_HOY1 0.58 43.0 3.46e-01 80.3% 62.8%
4492087 325.1.7.3 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › Apocytochr_F_C 0.57 36.0 3.71e-01 88.7% 67.7%
3995669 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.57 50.0 3.48e-01 100.0% 40.7%
3797569 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.57 41.0 4.54e-01 83.1% 100.0%
3217981 2484.1.1.200 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FTH 0.57 46.0 3.58e-01 97.2% 38.2%
4255411 220.1.1.126 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ycf4 0.57 44.0 3.84e-01 84.5% 75.5%
3378830 220.1.1.153 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_TRF2_HOY1 0.56 40.0 3.25e-01 76.1% 80.7%
3667806 2002.1.1.120 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.56 41.0 2.92e-01 78.9% 31.9%
5059099 241.2.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like 0.56 45.0 4.31e-01 95.8% 76.1%
3702281 375.8.1.0 ↗ few secondary structure elements › Rubredoxin-like › Zinc-binding domain of translation initiation factor 2 beta › Zinc-binding domain of translation initiation factor 2 beta 0.56 31.0 3.35e-01 77.5% 61.8%
3220737 207.1.1.52 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FBA_2 0.56 42.0 2.89e-01 91.5% 21.5%
5067503 218.1.1.2 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › Enolase_N 0.55 43.0 3.67e-01 100.0% 49.6%
4610858 220.1.1.44 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › POB3_N 0.53 38.0 3.37e-01 74.6% 72.4%
3632355 2007.1.3.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like 0.52 40.0 2.91e-01 85.9% 35.5%
5059727 5.1.9.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › Propeller domain in ABC toxin B component 0.50 42.0 3.09e-01 100.0% 45.8%
4635042 2002.1.1.120 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.50 40.0 2.70e-01 88.7% 35.0%
D2 medium residues 134-221
PDB
Domain cluster: rep: MK291445.1__AZV00424.1__pyei1_p07__00007__D165-223
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF04447.18 best dATP-dGTP_PPHyd 75.9 3.30e-21 96.6% 82.5%