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MK504443.1__QBJ03430.1__B521_0080__00080

Bact-Vir

MK504443.1__QBJ03430.1__B521_0080__00080

Identity

Accession:
MK504443 ↗
Kingdom:
phage

Quality

79.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Tybeckvirus› Lactobacillus_phage_521B

TaxID: 2510942

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 127-207
PDB
Domain cluster: representative
CATH (50)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1cbiA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.71 54.0 4.56e-01 90.1% 48.5%
1fu1A01 2.170.210.10 Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › DNA double-strand break repair and VJ recombination XRCC4, N-terminal 0.70 52.0 4.58e-01 79.0% 98.3%
3s6pA03 2.60.270.70 Mainly Beta › Sandwich › Mutm (Fpg) Protein; Chain: A, domain 2 › 0.68 52.0 4.32e-01 81.5% 89.4%
4i8oA02 3.30.160.690 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Bacterial toxin RNase RnlA/LsoA, N repeated domain 0.66 45.0 4.42e-01 86.4% 64.4%
2ffgA00 3.30.720.20 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Protein of unknown function DUF1797 0.65 42.0 4.25e-01 97.5% 66.3%
1vyfA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.64 54.0 4.49e-01 92.6% 54.1%
3stoA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.64 47.0 3.86e-01 77.8% 74.7%
3uaqB02 2.40.160.90 Mainly Beta › Beta Barrel › Porin › 0.63 46.0 3.66e-01 76.5% 57.7%
2eigA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.62 51.0 3.66e-01 88.9% 81.7%
3d4eA01 3.30.1450.10 Alpha Beta › 2-Layer Sandwich › Beta-lactamase Inhibitory Protein; Chain:B, domain 1 › 0.62 40.0 4.00e-01 85.2% 63.1%
2x1cB01 3.60.60.10 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › Penicillin V Acylase; Chain A 0.61 46.0 3.12e-01 79.0% 85.8%
5t5lA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.61 49.0 3.53e-01 86.4% 82.1%
6i8xA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.61 50.0 4.10e-01 90.1% 50.3%
4bbwA02 2.120.10.10 Mainly Beta › 6 Propeller › Neuraminidase › 0.61 51.0 3.33e-01 92.6% 39.8%
4r80A00 3.10.450.630 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 46.0 4.78e-01 82.7% 92.1%
2byoA00 2.50.20.20 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › 0.60 47.0 3.60e-01 84.0% 94.5%
1s1dA00 2.120.10.100 Mainly Beta › 6 Propeller › Neuraminidase › Apyrase 0.60 52.0 3.54e-01 100.0% 66.9%
2v8qA01 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.59 41.0 4.04e-01 82.7% 66.3%
3oyyA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.59 42.0 4.49e-01 81.5% 92.4%
7obmA01 2.130.10.120 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Prolyl oligopeptidase, N-terminal domain 0.58 51.0 3.47e-01 100.0% 31.5%
2xzhA00 2.130.10.110 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Clathrin heavy-chain terminal domain 0.58 50.0 3.35e-01 100.0% 53.6%
1ux6A02 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.58 45.0 3.38e-01 84.0% 76.0%
1e2rA02 2.140.10.20 Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase 0.57 50.0 3.19e-01 100.0% 47.0%
1ospO01 2.40.128.160 Mainly Beta › Beta Barrel › Lipocalin › C1 set domains (antibody constant domain-like) 0.57 49.0 4.51e-01 95.1% 81.9%
1inyA00 2.120.10.10 Mainly Beta › 6 Propeller › Neuraminidase › 0.57 49.0 3.23e-01 100.0% 39.7%
1zhxA03 2.40.160.120 Mainly Beta › Beta Barrel › Porin › 0.56 48.0 3.67e-01 95.1% 56.5%
6mlyB01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.56 48.0 3.40e-01 96.3% 40.1%
4omfA00 1.10.645.10 Mainly Alpha › Orthogonal Bundle › Cytochrome-c3 Hydrogenase; chain B › Cytochrome-c3 Hydrogenase, chain B 0.56 43.0 2.83e-01 85.2% 78.7%
2af5A02 3.90.930.1 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.56 48.0 4.04e-01 100.0% 55.8%
2a0aA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.56 44.0 3.78e-01 86.4% 63.4%
2vt8A00 3.40.1000.30 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › 0.56 47.0 3.89e-01 92.6% 66.4%
1plqA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.56 44.0 3.14e-01 86.4% 44.6%
4o9dA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.55 47.0 3.11e-01 100.0% 47.1%
4azzA00 2.60.120.560 Mainly Beta › Sandwich › Jelly Rolls › Exo-inulinase; domain 1 0.55 48.0 3.88e-01 100.0% 78.2%
7ne4A01 2.130.10.120 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Prolyl oligopeptidase, N-terminal domain 0.55 46.0 3.12e-01 95.1% 25.8%
4jocA00 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.55 46.0 3.06e-01 93.8% 61.8%
2xe4A02 2.130.10.120 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Prolyl oligopeptidase, N-terminal domain 0.54 45.0 3.05e-01 95.1% 25.9%
4gakA00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.54 45.0 3.19e-01 91.4% 78.4%
4l9cA00 3.40.1000.30 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › 0.53 46.0 3.75e-01 95.1% 58.0%
2eabB01 2.70.98.50 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › putative glycoside hydrolase family protein from bacillus halodurans 0.53 44.0 3.27e-01 98.8% 42.7%
3t0pA02 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.53 41.0 3.22e-01 87.7% 57.0%
1ealA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.53 41.0 3.63e-01 92.6% 55.9%
3vv1A00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.52 43.0 3.55e-01 100.0% 50.4%
1xkiA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.52 45.0 3.84e-01 93.8% 71.9%
5gm0A02 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.52 42.0 3.56e-01 95.1% 54.6%
4q1vA01 2.140.10.30 Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Dipeptidylpeptidase IV, N-terminal domain 0.51 44.0 2.83e-01 100.0% 42.0%
1y96D00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.51 36.0 3.57e-01 76.5% 71.1%
5nldB00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 42.0 3.53e-01 96.3% 52.9%
4ym3C00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 43.0 3.58e-01 100.0% 53.6%
3wucB00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 41.0 3.53e-01 91.4% 58.4%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4342741 243.19.1.3 ↗ a+b two layers › Cystatin-like › Phi ETA orf 56-like protein C-terminal domains › Phi ETA orf 56-like protein C-terminal domains › XkdV_N 0.86 79.0 7.79e-01 97.5% 97.6%
3967853 243.19.1.0 ↗ a+b two layers › Cystatin-like › Phi ETA orf 56-like protein C-terminal domains › Phi ETA orf 56-like protein C-terminal domains 0.85 80.0 6.98e-01 100.0% 73.0%
3974671 243.19.1.0 ↗ a+b two layers › Cystatin-like › Phi ETA orf 56-like protein C-terminal domains › Phi ETA orf 56-like protein C-terminal domains 0.83 75.0 7.42e-01 96.3% 95.3%
4033339 520.1.1.2 ↗ beta sandwiches › gp9 N-terminal domain-like › gp9 N-terminal domain-related › gp9 N-terminal domain-related › PF27308 0.81 73.0 7.17e-01 96.3% 97.6%
4033743 243.19.1.0 ↗ a+b two layers › Cystatin-like › Phi ETA orf 56-like protein C-terminal domains › Phi ETA orf 56-like protein C-terminal domains 0.81 73.0 7.23e-01 97.5% 98.8%
4221174 243.19.1.0 ↗ a+b two layers › Cystatin-like › Phi ETA orf 56-like protein C-terminal domains › Phi ETA orf 56-like protein C-terminal domains 0.80 74.0 7.03e-01 100.0% 94.7%
4031359 243.19.1.0 ↗ a+b two layers › Cystatin-like › Phi ETA orf 56-like protein C-terminal domains › Phi ETA orf 56-like protein C-terminal domains 0.80 72.0 7.16e-01 98.8% 100.0%
5054384 331.10.2.0 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase 0.70 49.0 5.20e-01 86.4% 82.9%
4539150 719.1.1.5 ↗ beta barrels › XRCC4, N-terminal domain-like › XRCC4, N-terminal domain › XRCC4, N-terminal domain › PF27933 0.69 51.0 4.22e-01 76.5% 99.3%
2755883 331.19.1.1 ↗ a+b two layers › TBP-like › Toxin RnlA N-terminal domains › Toxin RnlA N-terminal domains › RnlA_toxin 0.66 46.0 4.42e-01 86.4% 63.0%
4957722 71.1.1.0 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB 0.66 47.0 3.93e-01 77.8% 44.2%
3922884 5.1.4.271 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, PF30361 0.65 58.0 3.77e-01 100.0% 51.4%
4032161 809.1.1.0 ↗ a+b two layers › BLIP-like › beta-lactamase-inhibitor protein, BLIP › beta-lactamase-inhibitor protein, BLIP 0.65 41.0 4.55e-01 85.2% 81.2%
4946504 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.65 49.0 5.25e-01 91.4% 92.9%
5003245 243.8.1.0 ↗ a+b two layers › Cystatin-like › Uracil-DNA glycosylase inhibitor protein › Uracil-DNA glycosylase inhibitor protein 0.65 45.0 4.83e-01 77.8% 85.7%
4946505 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.63 48.0 5.13e-01 91.4% 92.9%
3690594 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.63 57.0 3.44e-01 100.0% 33.1%
3973387 5.1.5.74 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › DUF3686 0.63 55.0 3.76e-01 100.0% 47.7%
1760289 809.1.1.3 ↗ a+b two layers › BLIP-like › beta-lactamase-inhibitor protein, BLIP › beta-lactamase-inhibitor protein, BLIP › DUF3862 0.62 40.0 4.00e-01 85.2% 63.1%
136506 4075.1.1.2 ↗ a+b complex topology › RGC domain › RGC domain › RGC domain › PF29130 0.62 45.0 4.21e-01 76.5% 79.8%
3704822 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.61 39.0 3.12e-01 84.0% 31.9%
3588252 6043.1.1.0 ↗ a+b two layers › yfeY-like › yfeY-like › yfeY-like 0.61 39.0 4.22e-01 86.4% 80.0%
4026368 267.1.1.3 ↗ 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 › Cation_ATPase 0.61 49.0 3.60e-01 87.7% 62.8%
3526118 11.1.1.810 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › FGF-BP1 0.60 44.0 4.04e-01 77.8% 99.0%
3813307 5.1.3.67 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.59 53.0 3.48e-01 100.0% 64.3%
5014687 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.58 43.0 4.69e-01 80.2% 100.0%
5036065 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.58 49.0 5.07e-01 91.4% 98.7%
3482445 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.58 50.0 3.25e-01 100.0% 37.8%
3935387 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.58 51.0 3.67e-01 98.8% 49.6%
3391005 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.58 51.0 3.39e-01 100.0% 67.1%
3947082 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.57 45.0 4.38e-01 95.1% 76.7%
3938729 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.57 48.0 3.34e-01 95.1% 44.2%
3242469 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.57 50.0 3.11e-01 100.0% 28.8%
3929900 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.56 49.0 3.09e-01 100.0% 65.9%
3687946 511.1.1.0 ↗ beta sandwiches › Heat shock protein 70kD (HSP70), peptide-binding domain › Heat shock protein 70kD (HSP70), peptide-binding domain › Heat shock protein 70kD (HSP70), peptide-binding domain 0.56 41.0 3.17e-01 76.5% 75.3%
2448364 10.1.1.19 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Lectin_leg-like 0.56 45.0 3.37e-01 88.9% 81.6%
3630412 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.55 49.0 3.16e-01 100.0% 37.1%
4032029 243.1.1.0 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.55 43.0 4.11e-01 85.2% 89.5%
4681334 77.1.1.0 ↗ beta meanders › open-sided beta-meander › Outer surface protein › Outer surface protein 0.55 50.0 3.48e-01 100.0% 38.0%
3520914 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.54 44.0 2.49e-01 100.0% 7.7%
4028006 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.53 46.0 3.10e-01 100.0% 35.7%
3258731 241.15.1.2 ↗ a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain › PI31_Prot_N 0.53 45.0 3.76e-01 93.8% 65.7%
5002093 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.53 45.0 3.68e-01 93.8% 62.0%
3289896 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 43.0 2.59e-01 95.1% 12.9%
3179848 241.15.1.2 ↗ a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain › PI31_Prot_N 0.52 48.0 3.99e-01 100.0% 68.3%
3903171 5.1.4.8 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › CNH 0.52 44.0 3.05e-01 96.3% 44.8%
3716707 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.52 41.0 3.20e-01 85.2% 47.2%
3602888 10.1.1.21 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › 3keto-disac_hyd 0.52 45.0 3.56e-01 100.0% 61.4%
3616213 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.52 44.0 3.19e-01 100.0% 48.4%
5078992 267.1.1.3 ↗ 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 › Cation_ATPase 0.51 43.0 3.65e-01 91.4% 73.8%
D2 high residues 253-377
PDB
Domain cluster: rep: MK504442.1__QBJ03313.1__A3SAC12_0024__00024__D460-581
D3 medium residues 13-72
PDB