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BML_08182015_6_5m_scaffold_7_prodigal-single.1__X__X__00203

Bact-Vir

BML_08182015_6_5m_scaffold_7_prodigal-single.1__X__X__00203

Identity

Kingdom:
phage

Quality

92.8 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 4-44
PDB
Domain cluster: representative
CATH (52)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3k17A02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.82 72.0 4.93e-01 100.0% 96.4%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.77 66.0 4.41e-01 100.0% 45.5%
3k59A02 3.30.70.2250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › B family DNA polymerase, N domain, alpha/beta motif 0.76 65.0 5.60e-01 100.0% 98.5%
1x60A01 3.30.70.1070 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sporulation related repeat 0.74 64.0 5.37e-01 100.0% 91.7%
1bakA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.72 53.0 3.93e-01 90.2% 29.4%
1rlhA02 3.40.1520.10 Alpha Beta › 3-Layer(aba) Sandwich › hypothetical protein tt1634 › Ta1353-like 0.72 60.0 4.65e-01 100.0% 97.0%
1konA02 3.30.70.980 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › YebC, transcriptional regulation domain 0.71 58.0 4.67e-01 100.0% 46.7%
3rrkA03 3.30.70.2750 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.71 56.0 4.83e-01 97.6% 87.8%
2z5bB01 3.30.230.90 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.70 50.0 3.57e-01 75.6% 84.0%
5fljA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.70 51.0 3.35e-01 100.0% 18.1%
7npaA02 3.30.70.3340 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.70 60.0 4.76e-01 100.0% 78.8%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.70 61.0 4.87e-01 100.0% 65.9%
1mw7A02 3.30.70.980 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › YebC, transcriptional regulation domain 0.69 55.0 4.56e-01 100.0% 49.4%
2dy1A03 3.30.70.870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Elongation Factor G (Translational Gtpase), domain 3 0.68 58.0 4.80e-01 100.0% 88.2%
7ejoB01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.67 58.0 4.65e-01 100.0% 69.9%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.66 52.0 4.16e-01 92.7% 83.7%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.66 51.0 4.03e-01 90.2% 80.9%
3cjlA00 3.10.20.850 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Protein of unknown function DUF3861 0.66 44.0 3.51e-01 70.7% 69.3%
3weeA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.65 50.0 3.34e-01 87.8% 95.6%
2avxA00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.64 44.0 2.98e-01 75.6% 91.2%
2dulA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.63 49.0 2.97e-01 90.2% 17.5%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.63 49.0 4.43e-01 100.0% 63.6%
5l10B00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.62 47.0 3.15e-01 85.4% 92.4%
3nd1A02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.61 53.0 3.93e-01 100.0% 39.1%
2npnA02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.61 52.0 3.89e-01 100.0% 40.4%
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.60 48.0 3.77e-01 90.2% 89.1%
5utkA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 48.0 3.83e-01 100.0% 43.3%
4wiwA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.59 48.0 4.20e-01 100.0% 95.7%
1l1lA01 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.59 51.0 2.89e-01 100.0% 53.0%
1l3lA01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.58 46.0 3.10e-01 90.2% 91.8%
2pw9C03 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.58 48.0 3.44e-01 100.0% 31.2%
6uqjA02 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.57 44.0 2.71e-01 95.1% 19.7%
2i0kA02 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.57 47.0 3.42e-01 100.0% 31.7%
6cc0A01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.57 44.0 2.98e-01 85.4% 93.3%
4p04A01 2.60.40.3100 Mainly Beta › Sandwich › Immunoglobulin-like › Arylsulphate sulphotransferase monomer, N-terminal domain 0.57 45.0 3.56e-01 100.0% 42.5%
3hvnA01 3.90.840.10 Alpha Beta › Alpha-Beta Complex › HIV-1 Reverse Transcriptase; Chain A, domain 3 › Thiol-activated cytolysin superfamily/Thiol-activated cytolysin, alpha-beta domain 0.56 47.0 3.21e-01 100.0% 66.9%
2kgfA00 1.10.375.10 Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein 0.55 42.0 3.04e-01 90.2% 76.4%
3g8qA02 3.30.70.1940 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 48.0 3.89e-01 100.0% 51.2%
1dyqA02 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.55 47.0 3.25e-01 97.6% 71.8%
1cfbA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 46.0 3.52e-01 100.0% 39.6%
2z5bA00 3.30.230.100 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.55 43.0 3.13e-01 90.2% 35.4%
1cbfA02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.55 41.0 3.09e-01 87.8% 46.3%
3v6oA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 45.0 3.62e-01 100.0% 44.8%
2bkfA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.54 41.0 3.46e-01 100.0% 44.6%
6kryA01 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.54 43.0 3.11e-01 97.6% 73.9%
2ww8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 44.0 3.34e-01 100.0% 36.8%
1mzkA00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.53 41.0 3.17e-01 100.0% 91.8%
1rh8A00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.53 41.0 3.02e-01 100.0% 78.2%
1xreA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.53 48.0 3.42e-01 100.0% 50.9%
4harA00 3.10.50.50 Alpha Beta › Roll › Chitinase A; domain 3 › Rubella virus capsid protein 0.53 44.0 3.44e-01 100.0% 91.8%
2nscA01 3.30.70.1050 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Trigger factor ribosome-binding domain 0.53 39.0 3.24e-01 82.9% 59.0%
4iajA00 3.30.1490.390 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 0.51 39.0 3.46e-01 100.0% 78.9%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3715676 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.86 67.0 5.15e-01 100.0% 38.9%
5007155 304.163.1.0 a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.84 70.0 6.87e-01 100.0% 86.7%
3496071 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.80 70.0 5.44e-01 100.0% 73.3%
4448678 4.1.1.307 beta barrels › SH3 › SH3 › SH3 › PF26132 0.78 68.0 5.59e-01 100.0% 92.0%
4147528 4.1.1.307 beta barrels › SH3 › SH3 › SH3 › PF26132 0.77 69.0 5.75e-01 100.0% 95.7%
4231372 4.1.1.307 beta barrels › SH3 › SH3 › SH3 › PF26132 0.77 67.0 5.63e-01 100.0% 94.3%
4988159 304.37.1.1 a+b two layers › Alpha-beta plaits › Sulfite reductase, domains 1 and 3 › Sulfite reductase, domains 1 and 3 › NIR_SIR_ferr 0.77 65.0 4.71e-01 97.6% 55.7%
3510118 4076.1.1.0 a+b two layers › L9 N-domain-like › L9 N-domain-like › L9 N-domain-like 0.76 62.0 5.62e-01 100.0% 67.3%
4538961 304.14.1.1 a+b two layers › Alpha-beta plaits › Sporulation related repeat (SPOR) › Sporulation related repeat (SPOR) › SPOR 0.76 66.0 5.36e-01 97.6% 100.0%
11143 2484.1.1.34 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.76 66.0 3.83e-01 100.0% 13.6%
5046850 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.74 62.0 4.67e-01 90.2% 81.1%
4397568 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.73 61.0 4.61e-01 90.2% 80.0%
4997210 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.73 61.0 4.61e-01 90.2% 80.0%
3285401 3986.2.1.0 a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.72 61.0 5.10e-01 100.0% 61.3%
3400735 379.1.1.3 few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors › Kazal_2 0.69 50.0 4.63e-01 100.0% 60.0%
3400462 379.1.1.0 few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors 0.69 53.0 4.82e-01 100.0% 62.1%
3279061 304.3.1.0 a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.69 55.0 4.84e-01 100.0% 92.9%
4927986 206.1.3.17 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › DUF1297 0.68 56.0 3.35e-01 100.0% 13.5%
5012386 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.67 54.0 4.83e-01 100.0% 92.3%
5012895 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.67 56.0 5.21e-01 100.0% 90.9%
4547274 3714.1.1.0 a+b two layers › Lon-like protease MtaLonC helical domain › Lon-like protease MtaLonC helical domain › Lon-like protease MtaLonC helical domain 0.67 55.0 4.27e-01 100.0% 94.0%
4973780 2004.1.1.5 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.67 56.0 3.40e-01 100.0% 21.0%
4961379 4176.1.1.2 a/b three-layered sandwiches › a/b domain in CV3147-like proteins › a/b domain in CV3147-like proteins › a/b domain in CV3147-like proteins › S-Me-THD_N 0.66 55.0 3.55e-01 100.0% 20.0%
3766042 221.1.1.76 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.65 53.0 4.05e-01 100.0% 53.6%
4952986 304.3.1.0 a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.65 53.0 4.62e-01 100.0% 91.4%
5025450 304.3.1.0 a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.64 53.0 4.67e-01 97.6% 100.0%
3495764 4081.1.1.2 beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT 0.63 50.0 3.31e-01 97.6% 20.0%
3258276 4081.1.1.2 beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT 0.63 51.0 3.21e-01 97.6% 16.4%
4157844 304.3.1.0 a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.63 53.0 4.36e-01 100.0% 86.3%
5038375 4081.1.1.2 beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT 0.62 50.0 3.22e-01 97.6% 18.5%
3390562 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.61 50.0 4.38e-01 100.0% 64.3%
5027350 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.61 49.0 3.55e-01 100.0% 32.6%
4990489 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.61 51.0 4.84e-01 100.0% 94.0%
3957797 304.163.1.0 a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.61 47.0 4.31e-01 100.0% 93.8%
3216210 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.60 50.0 4.83e-01 100.0% 96.0%
5047912 304.3.1.0 a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.60 47.0 4.29e-01 100.0% 93.8%
3590261 822.3.1.1 a+b two layers › GYF/BRK domain-like › conserved domain protein SP_1775 › conserved domain protein SP_1775 › DUF4649 0.60 50.0 4.37e-01 100.0% 64.7%
4410522 223.1.1.7 a+b three layers › Profilin-like › sensor domains › sensor domains › Autoind_bind 0.59 47.0 3.12e-01 87.8% 92.7%
4004704 3115.6.1.2 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.59 49.0 4.81e-01 100.0% 95.6%
3935630 3346.1.1.0 a+b two layers › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 0.58 49.0 3.16e-01 97.6% 24.4%
3969006 3115.6.1.2 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.58 49.0 4.79e-01 100.0% 95.6%
3594014 2007.2.3.0 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II 0.58 49.0 3.12e-01 100.0% 19.2%
3499101 3346.1.1.5 a+b two layers › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › ODR4-like 0.57 45.0 3.02e-01 90.2% 59.0%
5001166 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.57 43.0 3.26e-01 100.0% 29.6%
3723416 212.1.1.12 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › UPF0029 0.56 42.0 2.97e-01 82.9% 60.1%
3879988 4081.1.1.2 beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT 0.56 47.0 3.01e-01 97.6% 17.2%
4472409 223.1.1.7 a+b three layers › Profilin-like › sensor domains › sensor domains › Autoind_bind 0.56 43.0 2.83e-01 82.9% 21.2%
5080205 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.56 47.0 4.49e-01 100.0% 92.0%
3218243 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.56 46.0 3.78e-01 100.0% 74.1%
3906455 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 47.0 4.24e-01 100.0% 70.0%
3599827 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 45.0 3.11e-01 100.0% 34.6%
4605018 221.1.1.54 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Ras_bdg_2 0.54 39.0 2.86e-01 78.0% 47.0%
3959955 304.163.1.3 a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › PF31118 0.54 41.0 4.10e-01 100.0% 93.3%
5081134 3986.2.1.0 a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.53 40.0 3.83e-01 100.0% 78.3%
4832969 882.1.1.2 a+b two layers › Ribosomal protein L5 › Ribosomal protein L5 › Ribosomal protein L5 › Ribosomal_L5,Ribosomal_L5_C 0.53 44.0 3.45e-01 100.0% 56.0%