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PHAGE-A5--js4906-26-5_S28_scaffold_15_curated_closed_complete_prodigal-single.1__X__X__00221

Bact-Vir

PHAGE-A5--js4906-26-5_S28_scaffold_15_curated_closed_complete_prodigal-single.1__X__X__00221

Identity

Kingdom:
phage

Quality

52.1 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 3-51
PDB
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2x4jA01 2.30.30.600 Mainly Beta › Roll › SH3 type barrels. › 0.74 48.0 3.78e-01 77.6% 32.4%
4x9cD00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.73 45.0 4.28e-01 73.5% 51.7%
3lnbA00 3.30.2140.20 Alpha Beta › 2-Layer Sandwich › Arylamine N-acetyltransferase fold › 0.68 47.0 3.01e-01 73.5% 14.3%
1w5rA01 3.30.2140.10 Alpha Beta › 2-Layer Sandwich › Arylamine N-acetyltransferase fold › Arylamine N-acetyltransferase 0.67 46.0 3.20e-01 73.5% 70.5%
3ossC00 2.30.30.830 Mainly Beta › Roll › SH3 type barrels. › 0.66 46.0 4.29e-01 75.5% 89.2%
4npsA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.66 51.0 4.94e-01 100.0% 75.9%
2q2tA03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.63 53.0 4.22e-01 100.0% 87.7%
2cocA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.62 45.0 3.66e-01 79.6% 48.0%
4g6tB00 6.10.20.120 Special › Helix non-globular › Arc Repressor Mutant, subunit A › 0.62 36.0 3.17e-01 77.6% 36.6%
5ejrA03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.62 44.0 3.80e-01 79.6% 46.3%
3fehA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.62 45.0 3.46e-01 81.6% 41.9%
3igfA02 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.60 47.0 4.17e-01 95.9% 58.1%
5kmpB00 3.50.50.100 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › 0.60 42.0 2.48e-01 77.6% 9.4%
5zx8A00 3.40.50.1470 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidyl-tRNA hydrolase 0.59 49.0 3.41e-01 98.0% 95.2%
2jwkA00 3.30.420.270 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.59 42.0 3.77e-01 79.6% 54.1%
2rdgA02 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.58 44.0 4.01e-01 100.0% 59.2%
2dmoA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.58 42.0 3.78e-01 77.6% 85.3%
1bvsA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.58 44.0 4.11e-01 100.0% 64.6%
3mxnB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 46.0 3.49e-01 93.9% 58.8%
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 0.56 41.0 3.95e-01 100.0% 69.0%
2it9A00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.55 45.0 3.54e-01 100.0% 70.0%
6gfaA02 3.30.30.30 Alpha Beta › 2-Layer Sandwich › Defensin A-like › 0.55 35.0 3.42e-01 93.9% 57.1%
2c9oB02 2.40.50.360 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RuvBL1 DNA/RNA binding domain 0.55 44.0 3.60e-01 100.0% 43.4%
7oode01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.54 46.0 4.18e-01 95.9% 92.6%
4hjwA00 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.54 42.0 2.60e-01 95.9% 50.4%
5a35A00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.53 43.0 3.44e-01 95.9% 51.8%
1xeaA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.53 37.0 2.50e-01 73.5% 76.0%
5gaeG01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.53 45.0 3.86e-01 98.0% 76.5%
3sfvB01 3.30.450.390 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.53 37.0 2.75e-01 75.5% 26.8%
1xd3C00 3.40.532.10 Alpha Beta › 3-Layer(aba) Sandwich › Ubiquitin C-terminal Hydrolase UCH-l3 › Peptidase C12, ubiquitin carboxyl-terminal hydrolase 0.53 36.0 2.44e-01 73.5% 66.1%
2jl8102 3.30.160.850 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.53 41.0 4.25e-01 89.8% 93.3%
5mmiG01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.53 45.0 3.83e-01 100.0% 71.4%
5cygB00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.52 43.0 2.77e-01 100.0% 40.0%
3rriA00 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 46.0 3.36e-01 100.0% 67.9%
4ntqB00 3.30.2450.20 Alpha Beta › 2-Layer Sandwich › Secreted effector protein pipB2 fold › 0.52 43.0 3.19e-01 100.0% 35.2%
3bexA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 38.0 3.09e-01 85.7% 72.3%
3kd9A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.52 42.0 3.04e-01 98.0% 52.1%
2onfA01 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.51 39.0 2.91e-01 100.0% 31.3%
3lxrF00 1.10.4120.20 Mainly Alpha › Orthogonal Bundle › SopE-like GEF fold › 0.51 43.0 2.94e-01 95.9% 79.6%
3hh0A01 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.51 39.0 3.61e-01 91.8% 87.5%
2ktsA01 2.40.128.270 Mainly Beta › Beta Barrel › Lipocalin › 0.51 43.0 3.48e-01 100.0% 56.9%
4o2zA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.51 44.0 3.14e-01 100.0% 33.3%
4g84A01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.51 41.0 2.56e-01 95.9% 14.4%
1ylxA00 3.30.70.1480 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GK1464-like 0.51 43.0 3.49e-01 100.0% 73.7%
1h0hB01 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 35.0 2.60e-01 73.5% 63.3%
3sfvB02 6.10.140.2010 Special › Helix non-globular › Helix Hairpins › 0.50 35.0 2.45e-01 77.6% 19.0%
1go4A00 3.30.900.10 Alpha Beta › 2-Layer Sandwich › Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A › HORMA domain 0.50 41.0 2.76e-01 93.9% 71.4%
ECOD (51)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5023640 292.2.1.0 a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain 0.77 53.0 4.58e-01 73.5% 58.2%
3877107 1170.1.1.3 beta barrels › IL8-related › IL8-related › IL8 › CXCL16 0.74 54.0 4.75e-01 79.6% 53.3%
4069793 4.1.1.97 beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.74 49.0 4.39e-01 81.6% 48.6%
4429329 4.1.1.97 beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.72 46.0 4.21e-01 79.6% 49.2%
4969727 230.1.1.3 a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › PTPS 0.71 46.0 3.24e-01 87.8% 20.2%
4933962 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.71 55.0 4.85e-01 85.7% 91.8%
5035483 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.69 44.0 3.01e-01 100.0% 18.8%
5044987 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.69 58.0 4.46e-01 100.0% 42.9%
3197429 244.2.1.10 a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD/NAD-linked reduatases, dimerisation (C-terminal) domain › FAD/NAD-linked reduatases, dimerisation (C-terminal) domain › NDH2_C 0.69 46.0 2.85e-01 75.5% 11.3%
142171 219.1.1.6 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Acetyltransf_2 0.68 47.0 3.01e-01 73.5% 14.3%
3988565 4.16.1.0 beta barrels › SH3 › PhtA domain-like › PhtA domain-like 0.68 48.0 4.99e-01 73.5% 82.2%
3247669 207.1.1.81 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.67 48.0 3.10e-01 79.6% 34.0%
3222321 207.1.1.81 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.66 46.0 2.91e-01 81.6% 14.1%
3232316 207.1.1.81 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.66 49.0 3.26e-01 81.6% 37.6%
4928860 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.66 52.0 4.64e-01 91.8% 89.3%
4956663 3291.1.1.49 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › NFACT_N 0.66 40.0 2.99e-01 100.0% 24.0%
5044090 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.64 42.0 2.87e-01 98.0% 20.6%
4992470 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 0.64 48.0 4.51e-01 81.6% 68.3%
3616888 207.1.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.64 48.0 2.94e-01 81.6% 14.2%
3220002 2484.1.1.200 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FTH 0.63 45.0 2.89e-01 77.6% 38.8%
3225057 207.1.1.81 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.63 46.0 3.16e-01 79.6% 47.0%
1921563 101.1.2.175 alpha arrays › HTH › HTH › winged helix domain › HTH_57 0.63 48.0 3.85e-01 87.8% 69.2%
4964626 101.1.2.931 alpha arrays › HTH › HTH › winged helix domain › DUF7528 0.62 42.0 3.11e-01 100.0% 26.9%
5031247 3755.3.1.127 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › NFACT_N 0.62 39.0 2.69e-01 98.0% 18.8%
3233815 207.1.1.81 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.61 45.0 2.92e-01 83.7% 22.0%
3602759 4.8.1.0 beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.61 44.0 4.15e-01 79.6% 63.3%
3222575 207.1.1.81 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.60 42.0 2.68e-01 79.6% 13.9%
3841716 220.1.1.123 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_SSH1-like_1st 0.60 48.0 3.44e-01 91.8% 37.4%
3706686 4263.2.1.0 a+b two layers › TTHA1528-like › FtsH Periplasmic Domain › FtsH Periplasmic Domain 0.59 46.0 4.25e-01 85.7% 64.6%
4959353 2498.1.1.58 mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › DUF2201_N 0.58 40.0 2.73e-01 98.0% 19.5%
5022892 220.1.1.82 beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_6 0.57 47.0 4.54e-01 98.0% 81.8%
5028466 304.56.1.0 a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like 0.57 46.0 3.45e-01 89.8% 37.5%
3216450 2484.1.1.200 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FTH 0.57 40.0 2.90e-01 81.6% 24.7%
3223155 207.1.1.81 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.57 40.0 2.63e-01 79.6% 35.0%
3711985 3883.1.1.1 alpha bundles › CDP-alcohol phosphotransferase helical bundle domain › CDP-alcohol phosphotransferase helical bundle domain › CDP-alcohol phosphotransferase helical bundle domain › CDP-OH_P_transf 0.57 44.0 2.94e-01 98.0% 67.2%
3244257 207.1.1.81 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.56 41.0 2.62e-01 81.6% 15.0%
3245311 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.56 40.0 3.17e-01 81.6% 36.2%
3228083 207.1.1.81 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.55 40.0 2.56e-01 81.6% 15.0%
4995072 101.41.1.0 alpha arrays › HTH › MRB1590 C-terminal domain › MRB1590 C-terminal domain 0.55 46.0 3.71e-01 95.9% 56.0%
4376573 301.13.1.1 a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.54 39.0 3.01e-01 81.6% 98.4%
3582026 5.1.10.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 12-bladed 0.54 45.0 3.82e-01 93.9% 75.0%
3677029 109.4.1.1985 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, Eplus_motif, E_motif 0.53 37.0 2.39e-01 73.5% 29.8%
3209881 109.4.1.207 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HEAT_2 0.53 37.0 2.12e-01 75.5% 7.0%
4039616 633.23.1.0 alpha bundles › Bromodomain-like › Claudin › Claudin 0.53 43.0 3.14e-01 100.0% 63.1%
3740923 4.1.1.107 beta barrels › SH3 › SH3 › SH3 › XRN1_D1 0.53 38.0 2.60e-01 77.6% 52.8%
4050305 298.1.1.6 a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › G6PD_C 0.53 36.0 2.27e-01 73.5% 46.6%
None 0.52 44.0 2.77e-01 100.0% 29.7%
4000205 384.1.1.0 few secondary structure elements › BPTI-like › BPTI-like › BPTI-like 0.52 43.0 4.27e-01 100.0% 90.0%
3525333 5.1.4.416 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › HPS3_N, HPS3_C 0.52 45.0 2.79e-01 100.0% 27.3%
3571482 5001.1.1.1 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.51 43.0 2.66e-01 100.0% 80.0%
3984768 3018.1.1.4 a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › DUF4942 0.50 40.0 3.13e-01 100.0% 56.9%
D2 medium residues 52-147
PDB
D3 medium residues 148-219
PDB