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BML_coassembly_scaffold_50_prodigal-single.1__X__X__00086

Bact-Vir

BML_coassembly_scaffold_50_prodigal-single.1__X__X__00086

Identity

Kingdom:
phage

Quality

92.3 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 medium residues 35-85
PDB
Domain cluster: representative
CATH (53)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3p5nA00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.84 75.0 5.15e-01 100.0% 45.8%
1ni9A01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.81 71.0 4.98e-01 96.1% 50.3%
3iu6A00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.76 66.0 4.79e-01 100.0% 88.8%
1sg7A00 1.10.1740.70 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › ChaB 0.75 60.0 5.34e-01 90.2% 69.3%
1dqeA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.75 56.0 4.12e-01 88.2% 30.7%
3pasA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.74 66.0 4.41e-01 100.0% 65.8%
3dd7C00 1.20.120.1870 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Fic/DOC protein, Fido domain 0.74 63.0 4.82e-01 100.0% 41.0%
1ynjJ01 1.10.1790.20 Mainly Alpha › Orthogonal Bundle › PTS-regulatory domain, PRD › 0.71 60.0 4.70e-01 98.0% 49.1%
2yx8A00 1.10.150.510 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Receptor activity modifying family 0.71 61.0 5.32e-01 100.0% 87.7%
1a8rA01 1.10.286.10 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › GTP cyclohydrolase I, N-terminal domain 0.71 53.0 4.51e-01 82.4% 61.2%
1vhnA02 1.10.1200.80 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Putative flavin oxidoreducatase; domain 2 0.70 59.0 5.38e-01 100.0% 76.1%
1n81A00 1.10.3030.10 Mainly Alpha › Orthogonal Bundle › Gametocyte protein Pfg27 › Gametocyte protein Pfg27 0.69 58.0 4.03e-01 98.0% 33.3%
4ht4A00 3.30.930.30 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › 0.68 60.0 4.03e-01 100.0% 52.1%
1baa001 1.10.530.10 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.67 58.0 4.00e-01 100.0% 73.0%
1vibA00 1.10.287.120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Neurotoxin B-IV-like 0.67 51.0 5.03e-01 86.3% 83.6%
2no4A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.66 54.0 4.90e-01 98.0% 78.7%
8igrI01 2.40.270.10 Mainly Beta › Beta Barrel › Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; Domain 6 › DNA-directed RNA polymerase, subunit 2, domain 6 0.66 47.0 3.34e-01 82.4% 22.7%
2mabA00 1.10.10.1350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Spidroin domain, C-terminal domain 0.66 55.0 4.39e-01 96.1% 67.9%
2xvtC00 1.10.150.510 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Receptor activity modifying family 0.65 56.0 4.91e-01 100.0% 83.5%
1qdbA02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.65 54.0 3.94e-01 94.1% 51.7%
1iuqA01 1.10.1200.50 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Glycerol-3-phosphate acyltransferase, alpha helical bundle, N-terminal 0.65 50.0 4.42e-01 86.3% 59.2%
3umbA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.64 53.0 4.73e-01 98.0% 78.5%
4bmoA00 1.10.620.20 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A 0.64 53.0 3.34e-01 96.1% 49.0%
3sghA00 1.25.40.390 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.64 55.0 3.19e-01 100.0% 37.0%
3zukA01 3.40.390.10 Alpha Beta › 3-Layer(aba) Sandwich › Collagenase (Catalytic Domain) › Collagenase (Catalytic Domain) 0.63 52.0 3.28e-01 100.0% 72.7%
4f53A00 1.25.40.390 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.63 54.0 3.16e-01 100.0% 35.5%
3qkaE02 1.10.287.2460 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.63 44.0 4.65e-01 86.3% 90.7%
1oisA01 1.10.10.41 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Yeast DNA topoisomerase - domain 1 0.63 54.0 4.48e-01 98.0% 76.1%
3ermB00 1.10.10.710 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › PSPTO_1197 like 0.62 44.0 4.24e-01 80.4% 64.1%
3djbA01 1.10.472.50 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like 0.62 47.0 3.87e-01 84.3% 53.1%
4xc6B01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 51.0 3.32e-01 100.0% 53.9%
3vkgA10 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.61 49.0 3.21e-01 84.3% 33.7%
3zdmB00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.61 48.0 4.88e-01 92.2% 86.0%
2v57A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.61 53.0 3.71e-01 100.0% 64.3%
1a41A02 1.20.120.380 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 0.60 52.0 4.31e-01 98.0% 61.7%
3a98A02 1.20.1270.350 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Dedicator of cytokinesis N-terminal subdomain 0.60 52.0 4.37e-01 98.0% 82.8%
2gfhA02 1.20.120.710 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Haloacid dehalogenase hydrolase-like domain 0.60 50.0 4.33e-01 100.0% 60.5%
3b0cW00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.60 44.0 4.04e-01 84.3% 60.3%
3zq5A03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.60 46.0 3.40e-01 100.0% 30.1%
3juiA00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.60 49.0 3.52e-01 100.0% 50.6%
1aluA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.60 52.0 3.67e-01 98.0% 86.0%
1zzpA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.59 51.0 4.03e-01 98.0% 87.2%
3jamD02 3.30.1140.32 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Ribosomal protein S3, C-terminal domain 0.59 46.0 3.57e-01 92.2% 42.9%
1fnnB03 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 0.59 51.0 4.09e-01 100.0% 69.9%
4lwoE01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.59 52.0 3.64e-01 96.1% 78.1%
2p9xA00 1.10.1200.200 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Protein of unknown function DUF3227 0.58 51.0 4.16e-01 100.0% 86.7%
1hwyA01 1.10.287.140 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 41.0 4.14e-01 78.4% 94.1%
3fseA01 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.58 48.0 3.34e-01 100.0% 99.0%
3otgA01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.57 45.0 3.05e-01 94.1% 50.0%
1dt9A01 3.30.960.10 Alpha Beta › 2-Layer Sandwich › Translation, Eukaryotic Peptide Chain Release Factor Subunit 1; Chain A › eRF1 domain 1 0.54 47.0 3.78e-01 100.0% 64.8%
2i2oA00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.54 46.0 3.11e-01 100.0% 32.7%
4lunU00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.52 46.0 2.83e-01 100.0% 21.9%
4wr4A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.50 40.0 3.39e-01 100.0% 69.5%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3278617 5063.1.1.0 alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK 0.87 66.0 6.73e-01 82.4% 90.0%
3949737 5057.1.1.35 alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › GtrA_DPMS_TM 0.85 76.0 5.56e-01 100.0% 60.0%
5038046 3896.1.1.0 alpha duplicates or obligate multimers › Intramembrane CDP-DAG synthetase-related › Intramembrane CDP-DAG synthetase-related › Intramembrane CDP-DAG synthetase 0.83 73.0 4.87e-01 98.0% 75.8%
4957365 5069.1.3.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.83 64.0 4.96e-01 84.3% 39.1%
4952080 1075.5.1.0 alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter 0.80 61.0 4.04e-01 84.3% 21.0%
4550256 604.12.1.76 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › IspA 0.79 72.0 6.26e-01 100.0% 89.3%
3704156 283.1.1.1 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › Creatinase/aminopeptidase › Creatinase/aminopeptidase › Peptidase_M24 0.79 69.0 4.66e-01 100.0% 35.1%
4176000 4954.1.1.1 a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 0.79 68.0 4.63e-01 100.0% 53.7%
3971001 3226.1.1.2 alpha complex topology › Uracil Transporter UraA › Uracil Transporter UraA › Uracil Transporter UraA › Sulfate_transp 0.78 67.0 3.92e-01 96.1% 42.7%
5014971 1075.5.1.8 alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › Polysacc_synt_3 0.75 65.0 4.32e-01 100.0% 53.1%
5082325 3705.1.1.3 alpha arrays › Bacterial chaperone lipoprotein (PulS_OutS) › Bacterial chaperone lipoprotein (PulS_OutS) › Bacterial chaperone lipoprotein (PulS_OutS) › Phage_holin_6_1 0.75 65.0 5.86e-01 98.0% 74.3%
3932144 633.4.1.0 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor 0.73 55.0 4.31e-01 84.3% 41.7%
3601274 140.1.1.0 alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.72 58.0 3.76e-01 92.2% 22.5%
3864752 376.1.1.113 few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › Pex2_Pex12 0.71 61.0 4.92e-01 100.0% 87.6%
4035852 4954.1.1.1 a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 0.71 60.0 3.90e-01 100.0% 31.4%
3335926 7023.1.1.2 alpha bundles › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › Pex2_Pex12 0.70 59.0 4.72e-01 100.0% 86.4%
5044994 181.1.1.1 alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N 0.69 57.0 4.97e-01 100.0% 68.2%
4493491 4958.1.1.1 a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 0.69 59.0 3.51e-01 100.0% 32.7%
3972934 4312.1.1.3 a+b two layers › RelE-like › RelE-like › RelE-like › ParE_toxin 0.69 53.0 4.23e-01 84.3% 41.9%
2776079 3787.1.1.0 alpha bundles › HAD superfamily helical bundle insertion domain 0.68 57.0 5.52e-01 96.1% 96.5%
5067753 2006.1.1.1 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase 0.68 57.0 3.74e-01 100.0% 36.7%
3749766 7023.1.1.2 alpha bundles › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › Pex2_Pex12 0.68 55.0 4.39e-01 94.1% 83.6%
4821317 2006.1.1.44 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase, Hydrolase_like 0.67 57.0 3.91e-01 100.0% 44.8%
4518770 7023.1.1.2 alpha bundles › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › Pex2_Pex12 0.67 57.0 4.42e-01 98.0% 79.1%
1146588 3640.1.1.1 alpha duplicates or obligate multimers › Minor ampullate fibroin 1 C-terminal domain › Minor ampullate fibroin 1 C-terminal domain › Minor ampullate fibroin 1 C-terminal domain › Spidroin_MaSp 0.66 55.0 4.39e-01 96.1% 67.9%
3402099 5043.2.1.5 extended segments › Sensor proteins transmembrane domains › NarQ transmembrane domain › NarQ transmembrane domain › ATP_synt_H 0.65 49.0 4.43e-01 86.3% 58.7%
4060070 101.11.1.1 alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.65 48.0 4.23e-01 82.4% 53.8%
3716509 101.1.10.0 alpha arrays › HTH › HTH › Cyclin-like 0.64 52.0 4.36e-01 94.1% 53.7%
4096107 140.1.1.4 alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › tRNA-synt_1e,DALR_2 0.64 54.0 3.63e-01 100.0% 30.7%
3462011 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.64 52.0 4.43e-01 92.2% 77.6%
4640576 2006.1.1.44 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase, Hydrolase_like 0.63 54.0 3.61e-01 100.0% 38.7%
2075033 3787.1.1.0 alpha bundles › HAD superfamily helical bundle insertion domain 0.63 52.0 4.60e-01 98.0% 74.7%
4964566 2006.1.1.1 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase 0.62 51.0 3.43e-01 100.0% 38.3%
4554262 2004.1.1.439 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › PF26341 0.62 54.0 3.60e-01 100.0% 71.8%
3972347 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.62 51.0 3.43e-01 100.0% 70.9%
5046548 2006.1.1.1 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase 0.61 50.0 3.36e-01 100.0% 38.7%
4629417 140.1.1.7 alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › DALR_2 0.61 49.0 3.72e-01 98.0% 53.1%
185221 3502.1.1.1 alpha bundles › uncharacterized conserved protein › uncharacterized conserved protein › uncharacterized conserved protein › YebG 0.60 45.0 4.23e-01 86.3% 86.6%
3268143 2498.5.1.0 mixed a+b and a/b › Zincin-like › GroEL-intermediate domain like › GroEL-intermediate domain like 0.60 53.0 4.59e-01 100.0% 78.8%
3592779 101.1.10.0 alpha arrays › HTH › HTH › Cyclin-like 0.60 53.0 4.39e-01 100.0% 60.0%
3605475 140.1.1.14 alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › tRNA-synt_1e 0.59 52.0 3.39e-01 100.0% 27.9%
4952540 140.1.1.7 alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › DALR_2 0.59 48.0 3.70e-01 98.0% 47.4%
3611824 101.7.1.0 alpha arrays › HTH › DEK-C › DEK-C 0.56 40.0 3.70e-01 80.4% 57.1%
3227967 616.1.1.2 alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › WHEP-TRS 0.56 46.0 4.42e-01 94.1% 83.3%
3234609 192.6.1.10 alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain › WHEP-TRS 0.55 43.0 4.39e-01 90.2% 96.0%