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NC_055727.1__YP_010091954.1__KNT71_gp060__00060

Bact-Vir

NC_055727.1__YP_010091954.1__KNT71_gp060__00060

Identity

Accession:
NC_055727 ↗
Kingdom:
phage

Quality

76.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Bragavirus› Proteus_phage_PM2

TaxID: 2025809

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 2-56
PDB
Domain cluster: representative
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2e55A00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.71 44.0 2.88e-01 98.2% 16.3%
1o70A02 2.30.180.10 Mainly Beta › Roll › FAS1 domain › FAS1 domain 0.67 49.0 3.55e-01 83.6% 27.6%
1iv8A02 3.30.1590.10 Alpha Beta › 2-Layer Sandwich › Maltooligosyl trehalose synthase, domain 2 › Maltooligosyl trehalose synthase, domain 2 0.64 44.0 3.44e-01 72.7% 41.5%
6fndA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.64 57.0 3.90e-01 100.0% 29.6%
3i3tA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.64 45.0 2.87e-01 83.6% 14.2%
3ihpA03 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.61 44.0 2.72e-01 83.6% 12.5%
2it9A00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.61 49.0 3.87e-01 100.0% 41.7%
3n6rA03 3.30.700.30 Alpha Beta › 2-Layer Sandwich › Glycoprotein, Type 4 Pilin › 0.61 51.0 3.87e-01 92.7% 47.4%
5cvmA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.60 47.0 2.98e-01 89.1% 15.9%
2yyzA02 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.60 44.0 4.41e-01 80.0% 98.3%
2qmiA02 2.40.128.210 Mainly Beta › Beta Barrel › Lipocalin › Pab87 octamerisation domain 0.58 46.0 3.88e-01 90.9% 66.0%
2obdA02 3.15.10.10 Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 1 › Bactericidal permeability-increasing protein; domain 1 0.58 50.0 3.48e-01 98.2% 85.2%
4at7A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.57 50.0 3.68e-01 100.0% 74.3%
3r7wB02 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.57 43.0 3.39e-01 90.9% 38.1%
3bu2A02 3.30.1940.10 Alpha Beta › 2-Layer Sandwich › Nucleic acid-binding protein fold › YtpR-like 0.57 35.0 3.26e-01 92.7% 49.3%
3fy6A01 3.30.2210.10 Alpha Beta › 2-Layer Sandwich › Integron cassette protein fold › Integron cassette protein superfamily 0.57 44.0 3.66e-01 89.1% 88.8%
1mdcA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.56 46.0 3.60e-01 96.4% 91.6%
4r8tB02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.56 40.0 3.70e-01 78.2% 91.8%
4n06A01 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 0.55 42.0 3.84e-01 89.1% 86.6%
3trkA01 3.90.70.110 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Alphavirus nsP2 protease domain 0.55 37.0 2.86e-01 70.9% 87.6%
3wnkA04 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.55 40.0 3.02e-01 76.4% 37.6%
1f0lA03 2.60.40.700 Mainly Beta › Sandwich › Immunoglobulin-like › Diphtheria toxin, receptor-binding domain 0.55 38.0 2.83e-01 74.5% 55.8%
3nwnA00 3.40.850.10 Alpha Beta › 3-Layer(aba) Sandwich › Kinesin › Kinesin motor domain 0.55 44.0 2.77e-01 89.1% 39.9%
4f87B00 3.30.720.190 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.54 38.0 3.72e-01 80.0% 67.7%
1t6aA02 3.30.310.120 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Rbstp2229 like protein 0.54 45.0 4.01e-01 90.9% 96.2%
1ov3A02 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.54 41.0 4.11e-01 83.6% 94.5%
2dmoA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.53 40.0 3.80e-01 83.6% 76.5%
1ckeA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 46.0 3.14e-01 100.0% 42.5%
3ix3A00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.53 44.0 3.22e-01 96.4% 86.5%
3lpxB02 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.52 36.0 3.06e-01 78.2% 43.6%
2sliA03 2.40.220.10 Mainly Beta › Beta Barrel › Intramolecular trans-sialidase; domain 3 › Intramolecular Trans-sialidase; Domain 3 0.52 42.0 3.60e-01 96.4% 95.0%
4iw9B01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.52 34.0 2.94e-01 70.9% 81.4%
4tllC01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.51 39.0 3.07e-01 87.3% 51.2%
1js3A03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.51 47.0 3.84e-01 100.0% 69.1%
3h5aD01 3.90.930.70 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.51 39.0 3.50e-01 90.9% 61.4%
1tedA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.51 39.0 2.91e-01 100.0% 31.5%
4umgA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 38.0 3.14e-01 81.8% 45.1%
1i24A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.50 44.0 2.90e-01 100.0% 55.9%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3816337 375.13.1.1 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Toprim_C_rpt 0.69 49.0 5.02e-01 83.6% 77.8%
5041846 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 44.0 4.91e-01 78.2% 92.3%
3655173 375.13.1.0 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain 0.69 49.0 5.14e-01 81.8% 84.0%
4449307 375.13.1.0 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain 0.68 48.0 4.66e-01 83.6% 68.3%
3958031 375.13.1.0 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain 0.68 48.0 4.89e-01 81.8% 76.4%
3930224 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.67 45.0 4.74e-01 70.9% 80.0%
4680303 375.13.1.1 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Toprim_C_rpt 0.66 46.0 4.79e-01 81.8% 80.0%
3590122 4999.1.1.1 ↗ beta barrels › YopX, C-terminal domain-like › YopX, C-terminal domain-like › YopX, C-terminal domain-like › YopX 0.66 50.0 4.79e-01 83.6% 73.8%
3529004 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.65 47.0 2.90e-01 83.6% 13.0%
4579024 375.13.1.1 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Toprim_C_rpt 0.65 47.0 4.72e-01 83.6% 74.1%
3962189 375.13.1.0 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain 0.64 46.0 4.42e-01 81.8% 64.6%
3620946 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.64 38.0 3.87e-01 100.0% 60.0%
4122804 375.13.1.1 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Toprim_C_rpt 0.63 46.0 4.62e-01 81.8% 76.4%
3911651 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.63 45.0 2.77e-01 83.6% 12.4%
4548409 375.13.1.1 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Toprim_C_rpt 0.63 43.0 4.54e-01 80.0% 80.0%
4281449 2.4.1.3 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE_2,OB_MalK 0.60 45.0 3.48e-01 81.8% 96.1%
4024708 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.60 45.0 2.73e-01 83.6% 11.7%
3518548 2004.1.1.80 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Cytidylate_kin 0.60 46.0 3.25e-01 92.7% 27.2%
4467867 3784.1.1.0 ↗ a+b two layers › Putative lipoprotein CPF_1278-related › Putative lipoprotein CPF_1278-related › Putative lipoprotein CPF_1278-related 0.59 50.0 3.79e-01 100.0% 77.9%
5018197 3487.1.1.1 ↗ a+b three layers › Integron cassette protein VCH_CASS3 › Integron cassette protein VCH_CASS3 › Integron cassette protein VCH_CASS3 › M1E1E6-like 0.59 46.0 3.73e-01 89.1% 76.5%
3217981 2484.1.1.200 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FTH 0.59 49.0 3.58e-01 100.0% 65.9%
3744519 101.1.2.535 ↗ alpha arrays › HTH › HTH › winged helix domain › PF25889 0.59 49.0 3.54e-01 92.7% 68.1%
4434185 3804.1.1.1 ↗ alpha bundles › CRISPR-Cas system RNase C2c2 N-terminal domain › CRISPR-Cas system RNase C2c2 N-terminal domain › CRISPR-Cas system RNase C2c2 N-terminal domain › Cas13a_endoribonuclease 0.59 48.0 3.58e-01 100.0% 33.9%
3932677 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.58 41.0 3.12e-01 83.6% 28.2%
4946049 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 0.58 45.0 4.05e-01 98.2% 60.0%
4082864 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.58 44.0 3.60e-01 83.6% 76.2%
3701500 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.58 44.0 3.67e-01 83.6% 82.7%
3583842 7.1.1.1 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ 0.57 43.0 3.16e-01 89.1% 95.4%
3924284 2484.1.1.175 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FGGY_N+FGGY_C 0.56 48.0 2.80e-01 100.0% 44.0%
3712065 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.56 46.0 4.44e-01 98.2% 87.7%
5003416 3487.1.1.0 ↗ a+b three layers › Integron cassette protein VCH_CASS3 › Integron cassette protein VCH_CASS3 › Integron cassette protein VCH_CASS3 0.56 43.0 3.53e-01 89.1% 77.2%
3469465 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.55 43.0 2.38e-01 100.0% 6.5%
3289942 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.55 38.0 3.41e-01 85.5% 48.2%
4945089 3487.1.1.0 ↗ a+b three layers › Integron cassette protein VCH_CASS3 › Integron cassette protein VCH_CASS3 › Integron cassette protein VCH_CASS3 0.55 43.0 3.62e-01 94.5% 83.6%
4478350 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 50.0 3.81e-01 100.0% 96.7%
3578128 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.54 39.0 3.91e-01 78.2% 85.5%
3714105 304.48.1.11 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RNA_pol 0.54 40.0 2.73e-01 100.0% 22.2%
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 0.54 47.0 3.62e-01 98.2% 90.4%
5001903 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 41.0 3.87e-01 89.1% 68.6%
5029930 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 45.0 3.71e-01 96.4% 84.0%
3931930 273.1.1.0 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like 0.53 44.0 2.83e-01 100.0% 21.0%
3578864 11.1.1.12 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Filamin 0.53 40.0 3.05e-01 81.8% 36.8%
4279367 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.52 46.0 4.02e-01 98.2% 66.3%
3911275 2004.1.1.87 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.52 43.0 2.65e-01 98.2% 69.5%
3325708 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.52 42.0 2.71e-01 94.5% 36.9%
4932061 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.52 34.0 3.74e-01 85.5% 82.2%
4002337 11.1.1.12 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Filamin 0.52 38.0 3.32e-01 87.3% 50.0%
3586280 11.1.1.12 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Filamin 0.51 38.0 2.59e-01 87.3% 20.9%
3385884 2003.1.15.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Glycosyltransferase Maf N-terminal domain › Maf_flag10_N 0.51 40.0 2.81e-01 87.3% 62.1%
3764049 2004.1.1.442 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_21 0.51 41.0 2.69e-01 98.2% 57.0%
3597216 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.51 44.0 2.73e-01 96.4% 50.9%
5016928 2003.1.5.66 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.51 38.0 2.55e-01 81.8% 28.2%