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MK448971.1__QBX29944.1__Javan52_0025__00045

Bact-Vir

MK448971.1__QBX29944.1__Javan52_0025__00045

Identity

Accession:
MK448971 ↗
Kingdom:
phage

Quality

65.6 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

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

D1 high residues 59-102
PDB
Domain cluster: representative
CATH (52)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1wu7A03 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.74 64.0 5.01e-01 100.0% 80.4%
1g5hB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.74 63.0 4.80e-01 100.0% 78.5%
3netB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.74 63.0 4.95e-01 100.0% 79.6%
1p5dX03 3.40.120.10 Alpha Beta › 3-Layer(aba) Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 3 › Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3 0.68 57.0 4.26e-01 100.0% 58.8%
2r3bA01 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.67 55.0 3.45e-01 100.0% 34.5%
1u0kA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.64 51.0 3.85e-01 100.0% 40.2%
1p9oA00 3.40.50.10300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › CoaB-like 0.63 51.0 3.24e-01 100.0% 23.0%
3ihpA03 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.62 46.0 2.77e-01 81.8% 94.3%
3td9A02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.62 52.0 3.67e-01 100.0% 28.5%
7lgjA01 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.62 51.0 3.23e-01 100.0% 17.7%
3lbfA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.62 51.0 3.38e-01 100.0% 59.9%
4dqwA02 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.62 47.0 3.61e-01 88.6% 39.8%
2x9aA00 2.30.27.10 Mainly Beta › Roll › Phage FD Coat Protein, Membrane penetration domain › Phage FD Coat Protein,Membrane penetration domain 0.61 45.0 4.09e-01 79.5% 77.0%
4n0qA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.60 47.0 3.41e-01 95.5% 28.7%
1itvA00 2.110.10.10 Mainly Beta › 4 Propeller › Hemopexin › Hemopexin-like domain 0.60 49.0 3.28e-01 97.7% 82.6%
1qhuA01 2.110.10.10 Mainly Beta › 4 Propeller › Hemopexin › Hemopexin-like domain 0.59 49.0 3.31e-01 97.7% 79.8%
3cdkB00 3.40.1080.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaconate Coenzyme A-transferase › Glutaconate Coenzyme A-transferase 0.59 49.0 3.26e-01 100.0% 84.0%
2ahuA02 3.40.1080.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaconate Coenzyme A-transferase › Glutaconate Coenzyme A-transferase 0.59 47.0 3.09e-01 100.0% 75.6%
2re3B03 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.59 36.0 3.94e-01 100.0% 76.7%
1ni5A02 1.20.59.20 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › 0.59 43.0 3.65e-01 86.4% 46.5%
2ci8A01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.58 46.0 4.40e-01 100.0% 91.1%
3l4eA00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.58 48.0 3.21e-01 95.5% 79.2%
1e88A03 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.58 41.0 4.22e-01 84.1% 83.3%
5jldA02 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.58 48.0 3.11e-01 100.0% 98.7%
1lmeA00 3.90.45.10 Alpha Beta › Alpha-Beta Complex › Peptide Deformylase › Peptide deformylase 0.58 46.0 3.33e-01 97.7% 83.1%
1fblA02 2.110.10.10 Mainly Beta › 4 Propeller › Hemopexin › Hemopexin-like domain 0.57 45.0 3.05e-01 97.7% 85.3%
4evqA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.56 46.0 3.21e-01 100.0% 26.6%
4amcA01 2.30.30.20 Mainly Beta › Roll › SH3 type barrels. › Aspartate carbamoyltransferase regulatory subunit, C-terminal domain 0.56 39.0 3.94e-01 77.3% 80.4%
1nf7A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.56 46.0 2.68e-01 100.0% 16.5%
3klkA01 2.10.270.10 Mainly Beta › Ribbon › left handed beta-beta-3-solenoid › Cholin Binding 0.55 43.0 3.13e-01 100.0% 90.1%
4n3pA02 3.65.10.10 Alpha Beta › Alpha-beta prism › UDP-n-acetylglucosamine1-carboxyvinyl-transferase; Chain › Enolpyruvate transferase domain 0.55 40.0 2.70e-01 84.1% 29.5%
1b3qA04 2.40.50.180 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › CheA-289, Domain 4 0.55 38.0 3.40e-01 72.7% 90.5%
3gdoA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.54 42.0 2.92e-01 97.7% 86.4%
3oymA01 1.10.340.70 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › 0.54 41.0 3.31e-01 100.0% 40.9%
4ifsA01 2.30.29.150 Mainly Beta › Roll › PH-domain like › 0.54 36.0 2.67e-01 70.5% 66.7%
2p6rA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 42.0 2.88e-01 95.5% 63.3%
2h9aA01 3.20.20.20 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Dihydropteroate synthase-like 0.54 41.0 2.70e-01 100.0% 28.8%
5zx8A00 3.40.50.1470 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidyl-tRNA hydrolase 0.53 41.0 2.90e-01 100.0% 63.4%
4fwwA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 41.0 2.46e-01 97.7% 96.4%
1bymA00 2.30.30.90 Mainly Beta › Roll › SH3 type barrels. › Ferrous iron transport protein A (FeoA) 0.53 39.0 3.28e-01 93.2% 66.0%
4r3dA03 2.60.120.1680 Mainly Beta › Sandwich › Jelly Rolls › 0.53 42.0 3.16e-01 100.0% 32.8%
1o70A02 2.30.180.10 Mainly Beta › Roll › FAS1 domain › FAS1 domain 0.53 38.0 2.85e-01 88.6% 44.9%
2np9B02 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.53 37.0 2.35e-01 84.1% 12.2%
2m3xC02 2.40.10.360 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.52 36.0 3.22e-01 95.5% 47.8%
3uzeC00 2.60.40.350 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 38.0 3.05e-01 81.8% 54.3%
2yzsA01 3.100.10.20 Alpha Beta › Ribosomal Protein L15; Chain: K; domain 2 › Ribosomal Protein L15; Chain: K; domain 2 › CRISPR-associated endonuclease Cas1, N-terminal domain 0.52 37.0 3.16e-01 79.5% 51.2%
5c68A00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.52 36.0 2.72e-01 72.7% 29.4%
1dl5A02 3.55.20.10 Alpha Beta › 3-Layer(bab) Sandwich › Protein-l-isoaspartate O-methyltransferase; Chain: A, domain 2 › Protein-L-isoaspartyl O-methyltransferase, C-terminal domain 0.51 44.0 3.28e-01 100.0% 49.1%
7t7jA02 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.51 37.0 2.40e-01 81.8% 88.5%
1br2A04 1.20.58.530 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 41.0 2.84e-01 95.5% 34.1%
6ro0B01 3.10.40.10 Alpha Beta › Roll › Pertussis Toxin; Chain B, domain 1 › Aerolysin/Pertussis toxin (APT), N-terminal domain 0.51 37.0 3.24e-01 93.2% 72.1%
1ds1A00 3.60.130.10 Alpha Beta › 4-Layer Sandwich › Double-stranded beta-helix › Clavaminate synthase-like 0.50 39.0 2.49e-01 100.0% 81.4%
ECOD (49)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4040104 2004.1.1.159 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.78 52.0 3.26e-01 100.0% 13.5%
4382986 2004.1.1.159 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.72 50.0 3.16e-01 100.0% 14.5%
3798336 4357.1.1.0 beta barrels › WWE domain › WWE domain › WWE domain 0.72 55.0 4.80e-01 86.4% 55.7%
5060936 331.1.1.0 a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.69 38.0 3.02e-01 79.5% 25.6%
3282838 2002.3.1.12 a/b barrels › TIM beta/alpha-barrel › Glycoside hydrolase/deacetylase › Glycoside hydrolase/deacetylase › DUF2334 0.69 55.0 3.55e-01 100.0% 17.5%
3967543 2002.3.1.12 a/b barrels › TIM beta/alpha-barrel › Glycoside hydrolase/deacetylase › Glycoside hydrolase/deacetylase › DUF2334 0.68 53.0 3.42e-01 100.0% 16.8%
3917719 3761.1.1.2 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.67 56.0 5.62e-01 97.7% 95.6%
4926919 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.65 51.0 3.22e-01 100.0% 17.3%
4328943 323.1.1.3 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.65 47.0 3.55e-01 84.1% 48.8%
3644667 7516.1.1.41 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glucan_synthase 0.64 51.0 3.13e-01 100.0% 29.6%
3385462 2007.1.2.13 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › Peripla_BP_6 0.63 52.0 3.63e-01 100.0% 27.0%
5064558 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.63 50.0 3.01e-01 100.0% 17.3%
3472269 2003.6.1.2 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › Carb_kinase 0.62 49.0 3.34e-01 100.0% 27.8%
3289616 2002.1.1.73 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › TGT 0.61 50.0 2.98e-01 100.0% 36.5%
4066538 3018.1.1.0 a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like 0.61 43.0 3.65e-01 81.8% 41.2%
4123424 2002.1.1.73 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › TGT 0.61 50.0 2.97e-01 100.0% 33.1%
3721249 101.1.9.0 alpha arrays › HTH › HTH › Putative DNA-binding domain 0.60 42.0 4.07e-01 79.5% 63.6%
3785670 207.1.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.60 48.0 2.94e-01 97.7% 27.0%
3231798 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.59 44.0 3.49e-01 79.5% 52.6%
3737672 270.1.1.2 beta barrels › FMT C-terminal domain-like › FMT C-terminal domain-related › FMT C-terminal domain-related › Formyl_trans_C 0.59 48.0 3.87e-01 100.0% 84.0%
3630470 391.1.2.0 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related 0.59 42.0 4.54e-01 77.3% 94.3%
4004053 7502.1.1.0 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.59 50.0 4.00e-01 100.0% 67.4%
4668024 2004.1.1.159 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.59 43.0 2.87e-01 100.0% 17.2%
139850 2007.1.1.6 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › Peptidase_S51 0.58 48.0 3.21e-01 95.5% 79.2%
3601825 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.58 47.0 3.61e-01 100.0% 67.8%
3560927 391.1.1.0 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.58 39.0 4.04e-01 84.1% 88.6%
3739944 109.4.1.570 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Vps8 0.57 45.0 2.50e-01 93.2% 13.3%
5066451 2484.1.1.79 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Raco_middle 0.57 46.0 3.11e-01 95.5% 53.2%
4361981 2007.1.2.7 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › LppC 0.56 46.0 3.34e-01 100.0% 29.7%
3197794 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.55 46.0 3.00e-01 93.2% 83.2%
4965206 4221.1.1.3 a+b two layers › YkuJ-like › YkuJ-like › YkuJ-like › PF26008 0.55 42.0 3.85e-01 95.5% 70.0%
3506125 304.48.1.0 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.55 44.0 3.36e-01 97.7% 94.2%
3547496 101.1.1.76 alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.55 39.0 3.00e-01 81.8% 39.1%
3286598 2498.2.1.0 mixed a+b and a/b › Zincin-like › beta-N-acetylhexosaminidase-like domain › beta-N-acetylhexosaminidase-like domain 0.55 36.0 2.54e-01 95.5% 17.7%
5061645 4312.1.1.15 a+b two layers › RelE-like › RelE-like › RelE-like › DUF4258 0.54 40.0 3.63e-01 81.8% 57.1%
3933997 101.1.1.76 alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.54 42.0 3.45e-01 100.0% 45.9%
3905031 101.1.1.76 alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.54 44.0 3.33e-01 100.0% 36.5%
4961462 5.1.4.40 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PQQ_2 0.53 40.0 2.55e-01 90.9% 31.8%
5042618 896.1.1.0 a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related 0.53 35.0 3.22e-01 70.5% 83.1%
4928750 3008.1.1.0 a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.53 37.0 2.85e-01 70.5% 62.7%
5008297 2005.1.1.0 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.53 44.0 3.57e-01 95.5% 96.7%
3546354 5.1.4.164 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_VPS8 0.52 41.0 2.47e-01 93.2% 23.5%
3781211 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.52 43.0 3.31e-01 100.0% 40.0%
3385541 3239.1.1.1 alpha complex topology › Cas1 › Cas1 › Cas1 › Cas_Cas1 0.52 36.0 2.29e-01 79.5% 54.5%
3509707 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.52 37.0 3.37e-01 81.8% 70.8%
4017719 226.1.1.0 a+b two layers › POZ domain › POZ domain › POZ domain 0.51 36.0 2.85e-01 84.1% 30.8%
3272410 101.1.1.76 alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.51 42.0 3.20e-01 100.0% 38.2%
5048597 4333.1.1.2 a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain › TaqI_C 0.50 43.0 2.59e-01 100.0% 16.4%
3576412 5.1.4.12 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Sema 0.50 34.0 2.06e-01 70.5% 24.8%