←Back to structures

KM607001.1__AIT74822.1__RB33_184__00184

Bact-Vir

KM607001.1__AIT74822.1__RB33_184__00184

Identity

Accession:
KM607001 ↗
Kingdom:
phage

Quality

85.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Tequatrovirus› Enterobacteria_phage_RB33

TaxID: 134822

Cluster

Singleton — not in a non-trivial cluster

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 2-49
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF26882.1 best Phage_T4_Y11B 108.5 2.30e-31 100.0% 64.9%
CATH (48)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2rh0A01 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.68 45.0 4.10e-01 70.8% 51.6%
1nkqB00 3.90.850.10 Alpha Beta › Alpha-Beta Complex › Fumarylacetoacetate hydrolase; domain 2 › Fumarylacetoacetase-like, C-terminal domain 0.65 45.0 2.86e-01 72.9% 57.0%
3tcoA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.65 45.0 3.48e-01 72.9% 77.4%
2gumB01 2.30.30.1230 Mainly Beta › Roll › SH3 type barrels. › 0.65 42.0 3.30e-01 87.5% 31.0%
4i6xA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.65 45.0 3.36e-01 72.9% 76.1%
3iv4A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.64 45.0 3.41e-01 72.9% 77.7%
4gc1A01 2.90.10.10 Mainly Beta › Orthogonal Prism › Agglutinin, subunit A › Bulb-type lectin domain 0.64 51.0 4.00e-01 89.6% 66.3%
2mtzA02 2.40.440.10 Mainly Beta › Beta Barrel › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like 0.63 45.0 3.44e-01 77.1% 83.2%
4a5pB01 3.40.30.60 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › FHIPEP family, domain 1 0.62 48.0 3.60e-01 85.4% 79.2%
2diyA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.62 43.0 3.34e-01 75.0% 78.4%
4cswA02 3.40.366.30 Alpha Beta › 3-Layer(aba) Sandwich › Malonyl-Coenzyme A Acyl Carrier Protein; domain 2 › 50S ribosomal protein L16 arginine hydroxylase; Chain A, Domain 2 0.61 46.0 3.22e-01 85.4% 35.2%
3uepA00 2.30.330.10 Mainly Beta › Roll › Surface presentation of antigens (SPOA) › SpoA-like 0.61 47.0 3.94e-01 85.4% 81.2%
4tveA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.60 42.0 3.19e-01 72.9% 75.2%
1nw2A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.60 43.0 3.40e-01 77.1% 80.0%
2pptA02 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.60 41.0 3.25e-01 72.9% 83.0%
3ktbA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.60 46.0 3.61e-01 85.4% 89.6%
3qdnA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.59 42.0 3.26e-01 75.0% 78.8%
5xrwC00 2.30.330.10 Mainly Beta › Roll › Surface presentation of antigens (SPOA) › SpoA-like 0.59 44.0 3.75e-01 79.2% 83.3%
5j7dC00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.59 41.0 3.27e-01 75.0% 78.3%
3eagA02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.59 49.0 3.24e-01 100.0% 41.1%
1a0rP01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.58 45.0 3.40e-01 87.5% 93.8%
4s39A02 3.30.413.10 Alpha Beta › 2-Layer Sandwich › Sulfite Reductase Hemoprotein; domain 1 › Sulfite Reductase Hemoprotein, domain 1 0.58 46.0 3.49e-01 87.5% 54.3%
2x49A01 3.40.30.60 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › FHIPEP family, domain 1 0.58 46.0 3.73e-01 89.6% 87.5%
1r26A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.58 41.0 3.24e-01 77.1% 95.6%
3hxlA02 2.60.40.4290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 46.0 3.87e-01 95.8% 81.1%
5tf2A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 44.0 2.73e-01 89.6% 37.3%
6g62A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 40.0 3.12e-01 75.0% 71.3%
6yleA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 43.0 2.62e-01 89.6% 82.1%
4mtnA01 3.30.1480.10 Alpha Beta › 2-Layer Sandwich › N Utilization Substance Protein A; Chain:P; domain 4 › NusA, N-terminal domain 0.56 44.0 3.60e-01 97.9% 45.3%
2od0A00 3.30.1460.30 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › YgaC/TfoX-N like chaperone 0.56 43.0 3.45e-01 87.5% 70.9%
1wiiA01 2.20.25.190 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.56 43.0 4.00e-01 87.5% 87.1%
1a8lA02 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 41.0 3.41e-01 89.6% 84.0%
2wm1A00 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.56 42.0 2.60e-01 85.4% 85.8%
3o4hA01 2.130.10.150 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Peptidase/esterase 'gauge' domain 0.55 47.0 2.94e-01 100.0% 22.3%
1q7hA01 3.10.450.120 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Pre-PUA domain; domain 1 0.55 38.0 3.52e-01 81.2% 52.3%
4hasA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.55 45.0 3.67e-01 100.0% 59.6%
3hkoA02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.55 44.0 2.97e-01 100.0% 84.1%
3mx7A00 2.40.128.180 Mainly Beta › Beta Barrel › Lipocalin › 0.54 43.0 3.53e-01 87.5% 58.9%
2wyoA04 3.40.50.1760 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glutathione synthase, substrate-binding domain superfamily, eukaryotic 0.54 41.0 3.08e-01 87.5% 66.2%
2r6iA01 3.30.2180.10 Alpha Beta › 2-Layer Sandwich › ATP12-like › ATP12-like 0.54 42.0 3.39e-01 85.4% 46.9%
4epkB00 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.54 40.0 2.49e-01 85.4% 86.4%
4werA02 2.60.200.40 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.54 44.0 3.15e-01 95.8% 71.9%
1r0xD00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 38.0 2.43e-01 79.2% 70.0%
1xhhA00 2.60.40.1900 Mainly Beta › Sandwich › Immunoglobulin-like › Beta-microseminoprotein (PSP94) domain 0.52 33.0 2.80e-01 85.4% 35.2%
2iz4A02 2.20.25.590 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.52 36.0 3.74e-01 89.6% 83.3%
6rwcA02 2.20.25.590 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.51 33.0 3.52e-01 83.3% 82.1%
2fgeA01 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.51 38.0 2.52e-01 87.5% 92.0%
1wxrA03 3.30.160.280 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.50 35.0 3.14e-01 75.0% 68.4%
ECOD (60)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4989851 2007.1.5.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › ATC-like 0.72 47.0 3.10e-01 77.1% 16.4%
4336160 319.1.1.21 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › GvpH 0.72 48.0 4.03e-01 70.8% 41.2%
3664203 2003.1.5.31 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › GRAS 0.68 47.0 2.74e-01 72.9% 73.1%
4031639 241.7.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › YgaC/TfoX-N like › YgaC/TfoX-N like › TfoX_N 0.66 49.0 4.04e-01 81.2% 71.1%
4966036 243.6.1.0 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain 0.66 46.0 4.13e-01 83.3% 51.4%
5003057 243.6.1.0 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain 0.65 47.0 4.17e-01 85.4% 52.9%
3260311 10.1.1.8 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › SPRY 0.65 45.0 2.54e-01 72.9% 14.8%
5028555 4292.2.1.0 ↗ a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.65 51.0 4.75e-01 91.7% 72.3%
3297758 5.3.1.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II › B_lectin 0.64 52.0 3.65e-01 91.7% 33.1%
4656014 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.64 50.0 3.55e-01 89.6% 60.0%
3178064 2485.1.1.1 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin 0.63 46.0 3.25e-01 77.1% 73.3%
4024943 4351.1.1.0 ↗ alpha arrays › ATP12-like › ATP12-like › ATP12-like 0.63 53.0 3.48e-01 97.9% 98.6%
3335997 5.3.1.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II › S_locus_glycop 0.63 46.0 3.39e-01 79.2% 83.8%
2527301 2485.1.1.1 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin 0.62 43.0 3.33e-01 72.9% 77.5%
3370535 5.3.1.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II 0.62 48.0 3.71e-01 91.7% 44.0%
5059446 241.7.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › YgaC/TfoX-N like › YgaC/TfoX-N like › TfoX_N 0.61 48.0 3.77e-01 85.4% 72.0%
3372169 5.3.1.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II 0.61 44.0 3.40e-01 79.2% 90.4%
4945596 4325.1.1.0 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like 0.61 44.0 4.51e-01 77.1% 84.4%
3604572 243.6.1.1 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain › DUF1947 0.60 45.0 4.04e-01 83.3% 54.3%
3303185 5.3.1.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II › B_lectin 0.60 47.0 3.40e-01 91.7% 46.5%
3028388 319.1.1.4 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › ArsA_HSP20 0.60 42.0 3.78e-01 77.1% 51.4%
3487549 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.59 47.0 2.58e-01 89.6% 26.0%
3930081 386.1.1.251 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › DUF7381 0.59 36.0 3.82e-01 77.1% 67.5%
4449615 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.59 47.0 3.91e-01 91.7% 61.1%
3606110 7516.1.1.0 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases 0.59 46.0 2.89e-01 93.8% 31.0%
3604222 7523.1.1.0 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II 0.59 46.0 3.51e-01 85.4% 48.2%
4379527 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.58 43.0 3.63e-01 81.2% 77.6%
4583884 296.1.1.3 ↗ a+b three layers › Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 › Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 › Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 › PF26540 0.57 46.0 3.42e-01 87.5% 50.4%
4040812 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.57 41.0 3.49e-01 81.2% 77.5%
4019186 5.3.1.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II 0.56 46.0 3.49e-01 89.6% 56.4%
4207880 212.1.1.0 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like 0.56 38.0 3.05e-01 70.8% 57.0%
4665982 296.1.1.0 ↗ a+b three layers › Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 › Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 › Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 0.56 42.0 3.34e-01 81.2% 55.0%
4082096 5.3.1.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II › S_locus_glycop 0.56 43.0 3.23e-01 91.7% 42.9%
3621466 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.56 40.0 2.50e-01 85.4% 97.3%
4639537 2004.1.1.67 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › CbiA 0.56 44.0 2.81e-01 91.7% 26.4%
1684841 241.13.1.2 ↗ a+b two layers › Type III secretory system chaperone-like › N-terminal domain of secreted effector protein sifA › N-terminal domain of secreted effector protein sifA › SopD 0.55 46.0 3.78e-01 93.8% 50.6%
3351647 5.3.1.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II 0.55 45.0 3.45e-01 93.8% 76.7%
4560753 212.1.1.0 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like 0.55 38.0 2.95e-01 72.9% 51.3%
4174140 318.1.1.0 ↗ a+b two layers › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal protein L6 0.55 39.0 3.42e-01 79.2% 78.8%
3961571 3699.1.1.3 ↗ beta meanders › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermine_synth 0.55 42.0 3.33e-01 91.7% 53.3%
3927052 319.1.1.3 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › CS 0.55 46.0 3.53e-01 97.9% 55.7%
4989504 2002.1.1.120 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.54 45.0 2.72e-01 95.8% 28.9%
4026983 604.1.1.135 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › DUF155 0.54 42.0 2.77e-01 87.5% 32.7%
5013988 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.54 39.0 3.03e-01 83.3% 82.3%
3947154 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.54 41.0 3.53e-01 91.7% 61.1%
3961651 4091.1.1.1 ↗ beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD 0.54 45.0 3.51e-01 89.6% 92.0%
3039678 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.53 39.0 3.02e-01 85.4% 57.6%
None — 0.53 39.0 2.65e-01 83.3% 20.5%
3832475 708.1.2.2 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like › SelR 0.52 43.0 3.22e-01 95.8% 86.7%
4991198 2.1.1.359 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › HupF_HypC 0.52 39.0 3.13e-01 89.6% 81.7%
4406214 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.52 41.0 3.48e-01 95.8% 61.3%
3495243 316.1.1.30 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › PAP_NTPase 0.52 38.0 2.65e-01 83.3% 21.1%
4148226 101.35.1.5 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH1 0.52 43.0 3.37e-01 95.8% 92.7%
None — 0.52 38.0 2.61e-01 83.3% 20.0%
3968733 3070.2.1.1 ↗ a+b complex topology › N0 domain in phage tail proteins and secretins-like › TonB-dependent receptor plug domain › TonB-dependent receptor plug domain › Plug 0.52 42.0 3.25e-01 100.0% 84.6%
3240229 2484.1.1.200 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FTH 0.51 39.0 2.53e-01 89.6% 20.0%
4202859 2004.1.1.67 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › CbiA 0.51 42.0 2.69e-01 87.5% 42.3%
4990890 221.4.1.1 ↗ a+b two layers › beta-Grasp › Nudix › Nudix › NUDIX 0.51 39.0 2.83e-01 91.7% 83.6%
4001520 4004.1.1.0 ↗ beta sandwiches › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like 0.50 41.0 2.72e-01 95.8% 65.2%
3943200 159.1.4.3 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Type II deoxyuridine triphosphatase-related › PRA-PH 0.50 34.0 2.27e-01 81.2% 13.8%