Back to structures

BML_coassembly_scaffold_13_prodigal-single.1__X__X__00122

Bact-Vir

BML_coassembly_scaffold_13_prodigal-single.1__X__X__00122

Identity

Kingdom:
phage

Quality

93.1 mean pLDDT

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 2-72
PDB
CATH (44)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1d1rA00 3.30.780.10 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor Eif1 › SUI1-like domain 0.69 56.0 5.39e-01 100.0% 78.3%
3en9A03 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.65 51.0 5.13e-01 87.3% 100.0%
3djwA00 3.30.160.300 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.64 35.0 3.19e-01 84.5% 40.0%
2vycA03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.63 55.0 4.07e-01 100.0% 67.4%
3wpwA00 3.30.1330.60 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › OmpA-like domain 0.61 47.0 3.75e-01 84.5% 85.2%
1xocA02 3.90.76.10 Alpha Beta › Alpha-Beta Complex › Dipeptide-binding Protein; domain 1 › Dipeptide-binding Protein; Domain 1 0.61 53.0 4.51e-01 100.0% 73.3%
4pfyA02 3.90.76.10 Alpha Beta › Alpha-Beta Complex › Dipeptide-binding Protein; domain 1 › Dipeptide-binding Protein; Domain 1 0.60 51.0 4.15e-01 100.0% 57.8%
3ruiA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.60 41.0 2.69e-01 71.8% 62.5%
1b7yB05 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.60 47.0 3.44e-01 85.9% 57.1%
2ykyB01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.59 51.0 3.82e-01 100.0% 39.7%
5i92F01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.59 51.0 3.93e-01 100.0% 44.3%
3besR02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 50.0 4.41e-01 98.6% 91.0%
4fh3A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.58 47.0 3.94e-01 88.7% 59.2%
2aujD03 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.58 38.0 4.07e-01 95.8% 77.4%
4feiA00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 45.0 4.02e-01 85.9% 85.3%
4zm3B01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.57 49.0 4.02e-01 100.0% 54.9%
2epjA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.57 49.0 3.75e-01 100.0% 43.2%
3w1zC00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 44.0 3.62e-01 84.5% 71.5%
1y8cA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.56 30.0 3.27e-01 85.9% 61.7%
3mwmA02 3.30.1490.190 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ferric-uptake regulator, C-terminal dimerisarion domain 0.56 32.0 3.59e-01 76.1% 75.0%
6em3x01 3.40.50.10480 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Brix domain 0.55 39.0 2.95e-01 76.1% 62.7%
5eh1A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 48.0 4.26e-01 100.0% 85.8%
3btxA00 2.60.120.590 Mainly Beta › Sandwich › Jelly Rolls › Alpha-ketoglutarate-dependent dioxygenase AlkB-like 0.54 42.0 3.03e-01 84.5% 85.3%
4eq3A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 48.0 4.31e-01 100.0% 82.7%
3djcB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.54 38.0 3.52e-01 100.0% 59.1%
4emtA02 3.40.50.12100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Stimulator of interferon genes protein 0.54 40.0 3.33e-01 81.7% 87.3%
3lqmA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 46.0 4.16e-01 100.0% 87.3%
3oonA00 3.30.1330.60 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › OmpA-like domain 0.53 38.0 3.39e-01 78.9% 94.7%
4ydzA00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 41.0 3.36e-01 84.5% 64.4%
1y6kR02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 45.0 4.07e-01 100.0% 88.3%
3hpcX00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.53 45.0 3.56e-01 97.2% 87.1%
3iq2A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.52 44.0 3.71e-01 94.4% 88.6%
6u7jA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 45.0 4.26e-01 100.0% 88.8%
3s98A03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 45.0 4.19e-01 100.0% 91.4%
1fyhB01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 46.0 4.15e-01 100.0% 83.5%
2bolA03 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 37.0 3.46e-01 100.0% 59.1%
3og6B02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 45.0 4.08e-01 100.0% 88.9%
2jhnA01 3.30.310.20 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › DNA-3-methyladenine glycosylase AlkA, N-terminal domain 0.52 40.0 3.51e-01 87.3% 68.1%
6rpxA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 45.0 4.28e-01 100.0% 94.1%
2wolA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.51 40.0 2.76e-01 93.0% 61.2%
7k7jA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 44.0 3.89e-01 100.0% 96.3%
1kwgA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.51 33.0 3.79e-01 84.5% 96.0%
3nm6B00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.51 43.0 3.12e-01 100.0% 99.6%
2esnA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.50 39.0 3.70e-01 98.6% 70.8%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4976249 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.80 45.0 3.80e-01 100.0% 34.8%
3279042 3016.1.1.2 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 › Aminotran_3 0.73 66.0 5.66e-01 100.0% 73.6%
2565004 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 0.71 55.0 5.01e-01 84.5% 64.2%
3960160 3016.1.1.2 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 › Aminotran_3 0.70 61.0 5.16e-01 100.0% 66.1%
3302660 109.4.1.1256 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3 0.70 41.0 2.86e-01 100.0% 18.6%
1193015 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 0.69 61.0 5.15e-01 100.0% 66.4%
5038003 7089.1.1.0 a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD 0.69 40.0 4.61e-01 100.0% 82.0%
4965997 4955.1.1.0 a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.68 60.0 5.62e-01 100.0% 91.1%
5011985 2484.2.1.0 mixed a+b and a/b › Ribonuclease H-like › Methylated DNA-protein cysteine methyltransferase domain › Methylated DNA-protein cysteine methyltransferase domain 0.68 41.0 4.19e-01 100.0% 61.4%
3972578 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 0.68 57.0 5.52e-01 94.4% 90.0%
3659556 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.67 39.0 4.77e-01 88.7% 93.3%
4382937 1.1.5.0 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.66 55.0 3.58e-01 91.5% 47.5%
5007420 2484.1.1.333 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF1464 0.64 41.0 3.15e-01 100.0% 28.5%
5001584 12.6.1.4 beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related › Glyco_hydro127M 0.64 33.0 3.15e-01 83.1% 40.0%
5048326 331.1.1.0 a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.64 54.0 4.72e-01 100.0% 91.3%
5027174 304.136.1.0 a+b two layers › Alpha-beta plaits › Oligo-peptide binding protein (OPPA) insertion domain › Oligo-peptide binding protein (OPPA) insertion domain 0.63 55.0 4.43e-01 100.0% 65.0%
5047317 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.62 49.0 4.59e-01 100.0% 69.4%
3970702 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 0.62 54.0 4.38e-01 100.0% 77.9%
3844241 221.1.1.0 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.62 35.0 3.53e-01 88.7% 52.0%
4649813 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 0.61 54.0 4.63e-01 100.0% 67.0%
4160300 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 0.61 53.0 4.99e-01 100.0% 87.5%
4588019 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 0.61 53.0 4.67e-01 100.0% 70.0%
1349621 304.136.1.1 a+b two layers › Alpha-beta plaits › Oligo-peptide binding protein (OPPA) insertion domain › Oligo-peptide binding protein (OPPA) insertion domain › SBP_bac_5 0.61 54.0 4.84e-01 100.0% 78.4%
3183515 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 0.61 52.0 4.23e-01 100.0% 55.2%
5055011 304.136.1.1 a+b two layers › Alpha-beta plaits › Oligo-peptide binding protein (OPPA) insertion domain › Oligo-peptide binding protein (OPPA) insertion domain › SBP_bac_5 0.61 53.0 4.39e-01 100.0% 66.9%
3199439 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.61 40.0 3.02e-01 100.0% 25.8%
5063699 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 0.60 52.0 4.66e-01 100.0% 73.3%
4321330 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 0.60 52.0 4.64e-01 100.0% 74.0%
4334138 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 0.60 52.0 4.61e-01 100.0% 73.3%
197866 11.1.1.92 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › IFNGR1_D2 0.59 50.0 4.35e-01 98.6% 87.1%
4392478 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.59 39.0 3.47e-01 100.0% 48.0%
4045052 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 0.58 50.0 4.33e-01 100.0% 68.7%
3468691 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.58 50.0 4.73e-01 100.0% 89.9%
3622454 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.57 50.0 3.09e-01 100.0% 31.1%
154597 319.1.1.1 beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › HSP20 0.57 45.0 4.02e-01 85.9% 85.3%
5071083 247.1.1.1 a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B 0.57 41.0 2.84e-01 77.5% 74.7%
3616681 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 49.0 4.76e-01 100.0% 91.3%
3925375 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.56 49.0 3.29e-01 100.0% 47.5%
4966096 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 50.0 4.16e-01 100.0% 97.6%
3257603 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.54 47.0 3.96e-01 97.2% 85.8%
3232476 319.1.1.1 beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › HSP20 0.54 41.0 3.72e-01 84.5% 85.0%
3626212 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.53 47.0 3.68e-01 100.0% 52.3%
5004469 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 0.53 39.0 2.96e-01 84.5% 31.2%
3239567 319.1.1.1 beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › HSP20 0.53 41.0 3.61e-01 84.5% 81.0%
4951189 802.1.1.0 a+b two layers › Hypothetical protein TM0160 › Hypothetical protein TM0160 › Hypothetical protein TM0160 0.53 32.0 3.54e-01 100.0% 84.0%
5045102 331.1.1.0 a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.53 41.0 3.84e-01 90.1% 94.7%
4025059 108.1.1.0 alpha arrays › EF-hand › EF-hand-related › EF-hand 0.52 45.0 3.50e-01 100.0% 93.5%
4057923 192.14.1.2 alpha bundles › Long alpha-hairpin › Siah interacting protein N terminal domain-like › Siah interacting protein N terminal domain-like › DUF3461 0.52 44.0 3.77e-01 100.0% 58.4%
3983642 220.1.1.73 beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF3461 0.52 44.0 4.09e-01 100.0% 73.3%
3387117 101.1.2.1 alpha arrays › HTH › HTH › winged helix domain › HTH_1 0.51 40.0 3.95e-01 98.6% 81.2%
3506702 12.5.1.2 beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › GPS 0.51 39.0 3.00e-01 83.1% 71.5%
3802317 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.50 37.0 3.27e-01 100.0% 50.4%