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JSantini_GMIN_scaffold_8_prodigal-single.1__X__X__00346

Bact-Vir

JSantini_GMIN_scaffold_8_prodigal-single.1__X__X__00346

Identity

Kingdom:
phage

Quality

89.4 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 2-52
PDB
Domain cluster: representative
CATH (46)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.70 59.0 5.30e-01 100.0% 77.6%
3qvnA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.69 51.0 4.00e-01 100.0% 35.9%
4njcA00 3.10.20.730 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNAP, epsilon subunit-like 0.68 59.0 5.65e-01 100.0% 86.7%
1vwxS02 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.68 56.0 5.09e-01 100.0% 77.6%
1x9tA02 3.90.1620.10 Alpha Beta › Alpha-Beta Complex › adenovirus 2 penton base, domain 2 › adenovirus 2 penton base, domain 2 0.67 57.0 3.61e-01 100.0% 38.6%
4qqgG00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.66 57.0 5.14e-01 98.0% 87.5%
2b9dA01 3.30.160.330 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.65 43.0 4.61e-01 82.4% 92.3%
2qsdA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.65 54.0 4.98e-01 96.1% 80.6%
2zw2A00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.63 54.0 4.68e-01 100.0% 100.0%
2ipiA01 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.63 55.0 3.58e-01 100.0% 24.2%
2ebfX01 3.10.670.10 Alpha Beta › Roll › Secreted effector protein ssei fold › Secreted effector protein ssei. 0.63 51.0 3.58e-01 98.0% 40.9%
3fgtA01 2.10.70.60 Mainly Beta › Ribbon › Complement Module; domain 1 › Phospholipase B-like, domain 1 0.63 41.0 4.02e-01 90.2% 58.2%
2f5tX02 2.30.30.690 Mainly Beta › Roll › SH3 type barrels. › 0.63 54.0 4.57e-01 100.0% 74.4%
2gfoA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.62 50.0 3.14e-01 98.0% 24.2%
3zoqC00 6.20.250.30 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.62 47.0 4.69e-01 100.0% 86.8%
1hq6B00 3.50.20.10 Alpha Beta › 3-Layer(bba) Sandwich › Pyruvoyl-Dependent Histidine Decarboxylase; Chain B › Pyruvoyl-Dependent Histidine Decarboxylase, subunit B 0.61 52.0 3.44e-01 100.0% 34.2%
3vteA03 3.40.462.20 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › 0.61 50.0 3.51e-01 98.0% 45.9%
1rlhA02 3.40.1520.10 Alpha Beta › 3-Layer(aba) Sandwich › hypothetical protein tt1634 › Ta1353-like 0.60 48.0 3.98e-01 96.1% 100.0%
3h96C00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.59 49.0 3.70e-01 98.0% 64.5%
3e0jB00 3.90.1030.20 Alpha Beta › Alpha-Beta Complex › 50s Ribosomal Protein L17; Chain: A, › DNA polymerase delta, p66 (Cdc27) subunit, wHTH domain 0.59 46.0 3.51e-01 100.0% 33.6%
3urgA02 2.30.30.530 Mainly Beta › Roll › SH3 type barrels. › Calcium binding protein CcbP, beta-barrel domain 0.58 48.0 4.55e-01 96.1% 96.8%
3dnhA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.58 47.0 3.47e-01 96.1% 61.6%
2bw2A01 3.10.20.420 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Bypass-of-forespore C, N-terminal domain 0.57 45.0 4.45e-01 96.1% 85.5%
1cqxA02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.57 48.0 3.89e-01 100.0% 67.6%
5chtB00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.56 43.0 2.83e-01 94.1% 68.0%
5cvmA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.56 44.0 2.86e-01 98.0% 69.2%
4aw7A01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.55 40.0 3.26e-01 96.1% 36.4%
1unnC00 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.55 45.0 3.67e-01 100.0% 45.9%
2aq6A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 47.0 3.46e-01 100.0% 36.4%
5kfzA04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.55 46.0 3.56e-01 100.0% 50.4%
1s3rA04 2.60.40.1430 Mainly Beta › Sandwich › Immunoglobulin-like › Perfringolysin, domain 4 0.54 45.0 3.63e-01 100.0% 46.8%
4dyoA02 2.30.250.10 Mainly Beta › Roll › Aminopeptidase i, Domain 2 › Aminopeptidase i, Domain 2 0.54 46.0 3.44e-01 100.0% 66.9%
6julA02 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.53 43.0 3.70e-01 100.0% 58.3%
8bs9A01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.53 41.0 2.71e-01 96.1% 26.7%
3mfiA04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.53 44.0 3.48e-01 100.0% 49.6%
2xzlA02 2.40.30.230 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.53 42.0 3.72e-01 92.2% 69.6%
2v3sA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 42.0 3.63e-01 98.0% 63.5%
2vpaA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.52 41.0 2.89e-01 100.0% 51.5%
4wiwA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.51 37.0 3.50e-01 82.4% 100.0%
3i3tA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.51 41.0 2.68e-01 100.0% 40.9%
6jhpA01 2.70.98.60 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › alpha-galactosidase from lactobacil brevis 0.51 41.0 2.67e-01 100.0% 26.9%
2f1eA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.51 39.0 3.16e-01 90.2% 79.3%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.51 40.0 2.76e-01 100.0% 43.1%
2kjkA00 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.50 38.0 3.25e-01 90.2% 88.0%
2govA01 3.20.80.10 Alpha Beta › Alpha-Beta Barrel › Multidrug-efflux Transporter 1 Regulator Bmrr; Chain A › Regulatory factor, effector binding domain 0.50 35.0 2.48e-01 74.5% 79.8%
2i0kA02 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.50 37.0 3.03e-01 98.0% 37.3%
ECOD (68)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4004704 3115.6.1.2 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.83 67.0 7.06e-01 100.0% 100.0%
4007508 3115.6.1.2 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.81 65.0 6.62e-01 100.0% 90.0%
3969006 3115.6.1.2 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.80 64.0 6.75e-01 98.0% 100.0%
4463006 3115.2.1.0 a+b two layers › GP2-like › GP2 › GP2 0.80 62.0 6.53e-01 94.1% 97.8%
4867394 3820.1.1.1 a+b complex topology › CRISPR-associated endonuclease Cas9 C-terminal domain › CRISPR-associated endonuclease Cas9 C-terminal domain › CRISPR-associated endonuclease Cas9 C-terminal domain › Cas9_PI 0.79 71.0 5.64e-01 100.0% 59.6%
3975705 3115.6.1.0 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon 0.79 64.0 6.45e-01 100.0% 92.0%
1145963 4012.3.1.1 a+b two layers › SSHS domain › SSHS domain in CRISPR-associated endonuclease Cas9 › SSHS domain in CRISPR-associated endonuclease Cas9 › Cas9_PI 0.77 68.0 5.46e-01 100.0% 59.0%
4951473 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.71 60.0 5.69e-01 100.0% 93.7%
4967222 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.71 60.0 5.79e-01 100.0% 98.3%
4160542 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.70 59.0 5.74e-01 98.0% 98.3%
3396683 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.70 58.0 5.11e-01 96.1% 65.8%
5000510 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.69 57.0 5.19e-01 100.0% 77.3%
4990637 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.69 57.0 5.01e-01 100.0% 72.3%
4996552 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.68 56.0 4.91e-01 100.0% 69.4%
4983090 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.68 56.0 5.03e-01 100.0% 74.7%
4937773 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.68 56.0 5.49e-01 98.0% 98.3%
5030993 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.68 57.0 5.04e-01 100.0% 72.5%
4969863 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.68 57.0 5.15e-01 100.0% 72.0%
5012895 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.67 59.0 5.78e-01 100.0% 94.5%
5067865 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.67 56.0 5.20e-01 100.0% 84.3%
4939739 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.67 55.0 5.31e-01 98.0% 98.3%
4943401 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.67 55.0 4.83e-01 100.0% 87.1%
3508212 3115.1.1.6 a+b two layers › GP2-like › RplX-like › RplX-like › DUF4494 0.67 58.0 5.29e-01 100.0% 85.7%
3958897 4187.2.1.0 a+b two layers › NosL/MerB-like › DUF2233 › DUF2233 0.66 52.0 4.09e-01 100.0% 39.2%
5074648 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.66 56.0 5.03e-01 100.0% 77.3%
5065436 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.66 55.0 5.24e-01 100.0% 90.6%
2831852 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.65 54.0 4.48e-01 100.0% 58.4%
5061415 217.1.1.2 a+b complex topology › FAD-binding domain-like › FAD-binding domain › FAD-binding domain › FAD_binding_4 0.64 54.0 3.72e-01 98.0% 28.0%
3166677 3792.1.1.0 beta sandwiches › 26S proteasome subunit Rpn2 C-terminal domain › 26S proteasome subunit Rpn2 C-terminal domain › 26S proteasome subunit Rpn2 C-terminal domain 0.63 46.0 4.02e-01 96.1% 49.4%
3965010 3115.4.1.1 a+b two layers › GP2-like › Uncharacterized conserved protein Il1583 › Uncharacterized conserved protein Il1583 › DUF1543 0.63 52.0 4.45e-01 100.0% 61.1%
3724875 1.1.5.0 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.62 50.0 3.24e-01 100.0% 51.3%
4055104 284.1.1.0 a+b two layers › FKBP-like › FKBP-like › FKBP-like 0.61 53.0 4.54e-01 100.0% 91.8%
3810292 3792.1.1.2 beta sandwiches › 26S proteasome subunit Rpn2 C-terminal domain › 26S proteasome subunit Rpn2 C-terminal domain › 26S proteasome subunit Rpn2 C-terminal domain › APC1_3rd 0.61 44.0 3.97e-01 100.0% 54.7%
3413652 379.1.1.0 few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors 0.61 47.0 4.55e-01 98.0% 80.0%
3399490 379.1.1.0 few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors 0.60 49.0 4.61e-01 98.0% 73.8%
146929 3115.3.1.1 a+b two layers › GP2-like › P56 › P56 › UDG-inhib_P56 0.60 46.0 4.52e-01 100.0% 82.1%
3217805 386.1.1.366 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › BPTI_nem 0.60 44.0 3.88e-01 86.3% 52.5%
4209798 4.15.1.2 beta barrels › SH3 › TrmB C-terminal domain-like › TrmB C-terminal domain-like › PF31112 0.58 47.0 4.04e-01 92.2% 76.5%
3235704 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.58 45.0 4.02e-01 100.0% 58.3%
4298891 4121.1.1.2 a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › MRS2-like 0.57 46.0 2.98e-01 94.1% 30.4%
3411558 302.1.1.1 a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.57 47.0 3.59e-01 100.0% 47.1%
3994984 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.57 47.0 4.44e-01 100.0% 87.7%
4490981 302.1.1.1 a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.57 47.0 3.82e-01 100.0% 48.2%
4452137 1.1.7.7 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.57 48.0 3.66e-01 100.0% 68.1%
3401129 1.1.17.1 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.56 43.0 2.91e-01 90.2% 33.6%
3900025 12.1.1.0 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.56 40.0 3.65e-01 76.5% 55.7%
4246959 1.1.2.0 beta barrels › cradle loop barrel › RIFT-related › double psi 0.56 46.0 3.63e-01 100.0% 98.4%
4810251 304.48.1.1 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.55 43.0 2.91e-01 98.0% 24.5%
3239822 221.1.1.0 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.54 45.0 3.48e-01 100.0% 56.2%
4029890 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.54 43.0 2.78e-01 100.0% 38.1%
3905094 302.1.1.1 a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.54 43.0 3.36e-01 100.0% 48.1%
4951717 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.54 44.0 4.00e-01 100.0% 98.7%
4978692 1075.1.2.0 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain 0.54 41.0 2.71e-01 96.1% 45.6%
3489525 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.53 42.0 2.83e-01 94.1% 35.0%
3243722 3792.1.1.0 beta sandwiches › 26S proteasome subunit Rpn2 C-terminal domain › 26S proteasome subunit Rpn2 C-terminal domain › 26S proteasome subunit Rpn2 C-terminal domain 0.53 40.0 3.37e-01 96.1% 44.0%
3390499 302.1.1.1 a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.53 41.0 3.28e-01 100.0% 60.7%
3592488 219.1.1.0 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.53 42.0 2.71e-01 100.0% 27.9%
3276865 2492.1.1.0 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.52 41.0 3.54e-01 100.0% 53.0%
4265797 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.52 41.0 2.62e-01 100.0% 36.1%
4003316 10.7.1.0 beta sandwiches › jelly-roll › Hypothetical protein TM1070 › Hypothetical protein TM1070 0.52 41.0 3.29e-01 98.0% 52.8%
3246511 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.52 41.0 2.66e-01 100.0% 40.0%
3472537 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.51 41.0 2.57e-01 100.0% 41.7%
4000172 10.7.1.0 beta sandwiches › jelly-roll › Hypothetical protein TM1070 › Hypothetical protein TM1070 0.51 40.0 3.30e-01 98.0% 53.9%
3650990 274.1.1.44 a+b two layers › Pili subunits › Pili subunits › Pili subunits › DUF7804 0.51 42.0 3.24e-01 100.0% 40.0%
3903618 219.1.1.54 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C98 0.51 43.0 2.73e-01 100.0% 23.1%
3255162 3662.1.1.1 a+b two layers › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › PAC3 0.51 36.0 2.87e-01 78.4% 40.0%
3351981 3792.1.1.2 beta sandwiches › 26S proteasome subunit Rpn2 C-terminal domain › 26S proteasome subunit Rpn2 C-terminal domain › 26S proteasome subunit Rpn2 C-terminal domain › APC1_3rd 0.50 42.0 3.44e-01 100.0% 84.8%
3928350 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.50 41.0 2.73e-01 100.0% 45.0%