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MH509447.1__AXH47340.1__SEA_EDEN_45__00045

Bact-Vir

MH509447.1__AXH47340.1__SEA_EDEN_45__00045

Identity

Accession:
MH509447 ↗
Kingdom:
phage

Quality

72.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Edenvirus› Microbacterium_phage_Eden

TaxID: 2250289

Cluster

View cluster (2 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 17-70
PDB
Domain cluster: representative
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5oklA01 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.91 64.0 5.05e-01 74.1% 39.6%
3rv0C02 1.10.1520.10 Mainly Alpha › Orthogonal Bundle › Ribonuclease iii, N-terminal Endonuclease Domain; Chain A › Ribonuclease III domain 0.83 59.0 4.27e-01 75.9% 55.6%
3umbA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.82 72.0 6.30e-01 96.3% 75.9%
3ermB00 1.10.10.710 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › PSPTO_1197 like 0.81 59.0 5.57e-01 85.2% 65.6%
1wgfA01 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.80 54.0 5.48e-01 70.4% 79.2%
2khmA01 1.10.10.1350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Spidroin domain, C-terminal domain 0.80 58.0 4.62e-01 77.8% 38.9%
1x42A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.79 68.0 5.87e-01 96.3% 69.9%
4hhrA01 1.10.640.10 Mainly Alpha › Orthogonal Bundle › Myeloperoxidase, subunit C › Haem peroxidase domain superfamily, animal type 0.78 70.0 3.91e-01 98.1% 13.4%
2no4A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.77 69.0 6.19e-01 100.0% 77.3%
1fcqA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.77 57.0 3.49e-01 88.9% 13.7%
6wxrA01 1.10.640.10 Mainly Alpha › Orthogonal Bundle › Myeloperoxidase, subunit C › Haem peroxidase domain superfamily, animal type 0.76 68.0 3.93e-01 98.1% 21.8%
1rp3A01 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.76 66.0 5.72e-01 100.0% 75.3%
4evxA00 1.10.1740.240 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › 0.75 64.0 5.39e-01 100.0% 91.8%
2pe4A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.74 55.0 3.22e-01 90.7% 10.3%
4uqfG01 1.10.286.10 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › GTP cyclohydrolase I, N-terminal domain 0.73 50.0 5.11e-01 75.9% 75.0%
1ad6A00 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.73 59.0 4.04e-01 88.9% 51.4%
1sg7A00 1.10.1740.70 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › ChaB 0.72 63.0 5.66e-01 100.0% 78.7%
7oufB01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.72 62.0 4.56e-01 100.0% 81.9%
1t6jA03 1.10.274.20 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Phenylalanine ammonia-lyase 1; domain 3 0.71 62.0 5.08e-01 100.0% 62.1%
1gvfB00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.70 58.0 3.72e-01 94.4% 86.5%
3ikhA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.69 60.0 3.81e-01 100.0% 23.8%
3k6hA01 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.68 52.0 3.71e-01 83.3% 86.8%
4mixA00 3.90.550.20 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › 0.68 59.0 3.75e-01 100.0% 33.3%
3vm9A02 6.10.140.2110 Special › Helix non-globular › Helix Hairpins › 0.66 47.0 4.62e-01 75.9% 77.2%
4cc9B00 1.20.5.4730 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.64 56.0 4.62e-01 100.0% 56.1%
1ekjA00 3.40.1050.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase 0.63 49.0 3.39e-01 88.9% 58.6%
1v4gA01 6.10.140.800 Special › Helix non-globular › Helix Hairpins › 0.63 43.0 3.98e-01 70.4% 55.1%
1eljA02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.63 53.0 3.74e-01 100.0% 73.7%
2zgyA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.63 46.0 3.41e-01 77.8% 41.4%
2qgsB01 1.10.472.50 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like 0.63 50.0 4.45e-01 96.3% 63.6%
1vj7B01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.62 53.0 3.75e-01 98.1% 56.1%
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 0.62 47.0 3.28e-01 81.5% 29.5%
6oi7A01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.58 45.0 3.13e-01 85.2% 71.4%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.58 41.0 3.79e-01 75.9% 59.7%
4fxdA04 3.90.1600.10 Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain 0.57 41.0 3.09e-01 79.6% 73.2%
4jrfA03 1.10.20.150 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › 0.57 47.0 3.86e-01 96.3% 84.0%
3ezuA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.56 46.0 3.22e-01 90.7% 94.0%
1i6pA00 3.40.1050.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase 0.56 49.0 3.30e-01 100.0% 42.1%
5mmjb02 1.10.287.610 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.55 39.0 3.96e-01 72.2% 80.8%
6he1B01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.51 43.0 4.16e-01 100.0% 87.5%
6nklB00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.51 42.0 3.22e-01 96.3% 54.1%
ECOD (57)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3217438 5054.1.1.17 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › TRAM_LAG1_CLN8 0.94 69.0 4.28e-01 75.9% 16.7%
4980598 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 0.92 66.0 4.24e-01 75.9% 18.6%
5061662 140.1.1.11 ↗ 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_1 0.91 66.0 4.13e-01 75.9% 17.1%
5036318 140.1.1.11 ↗ 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_1 0.90 65.0 4.17e-01 75.9% 19.2%
3235805 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.89 61.0 6.99e-01 72.2% 97.5%
None — 0.87 64.0 3.83e-01 77.8% 12.5%
3426642 375.1.1.96 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › YABBY 0.87 60.0 6.22e-01 72.2% 82.0%
3588902 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.86 61.0 4.40e-01 74.1% 28.6%
5016525 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.86 73.0 6.30e-01 98.1% 61.3%
3398172 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.86 59.0 4.65e-01 72.2% 41.0%
4543805 230.3.1.1 ↗ a+b two layers › T-fold › Elongation factor Ts (EF-Ts), dimerisation domain › Elongation factor Ts (EF-Ts), dimerisation domain › EF_TS 0.85 64.0 4.78e-01 81.5% 34.9%
4658028 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 0.84 73.0 4.05e-01 94.4% 44.7%
5028816 2005.1.1.7 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d 0.82 71.0 3.96e-01 92.6% 40.3%
3885705 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.81 55.0 4.76e-01 72.2% 50.6%
4997668 2005.1.1.7 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d 0.80 67.0 3.82e-01 90.7% 57.0%
3809576 103.4.1.5 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › KIX_2 0.80 59.0 5.56e-01 79.6% 72.3%
4339297 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.79 72.0 4.80e-01 100.0% 62.1%
3559913 101.1.10.7 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin_C 0.79 69.0 5.29e-01 100.0% 55.2%
3579091 103.15.1.1 ↗ alpha arrays › RuvA-C › Mitoribosomal protein mS23 › Mitoribosomal protein mS23 › MRP-S23 0.78 71.0 5.21e-01 100.0% 45.5%
61904 142.1.1.3 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2 0.76 66.0 5.74e-01 100.0% 74.4%
4232288 4275.1.1.10 ↗ alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › NifW 0.76 66.0 6.13e-01 100.0% 97.1%
5070097 4070.1.1.2 ↗ alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M50 0.76 65.0 4.13e-01 92.6% 41.2%
4407077 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.75 61.0 5.40e-01 98.1% 61.3%
3970007 3502.1.1.0 ↗ alpha bundles › uncharacterized conserved protein › uncharacterized conserved protein › uncharacterized conserved protein 0.75 64.0 5.76e-01 94.4% 72.0%
5047497 1045.1.1.0 ↗ alpha bundles › Rad50-binding domain of Mre11 › Rad50-binding domain of Mre11 › Rad50-binding domain of Mre11 0.75 64.0 6.10e-01 98.1% 87.7%
3309955 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.75 64.0 5.29e-01 98.1% 53.0%
3651471 5076.1.1.1 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.75 64.0 3.94e-01 92.6% 34.0%
3826683 5076.1.1.1 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.75 58.0 3.59e-01 85.2% 32.5%
3350634 5076.1.1.1 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.74 63.0 3.95e-01 92.6% 35.9%
4019596 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.74 64.0 4.23e-01 92.6% 38.1%
3503648 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.73 58.0 5.59e-01 85.2% 78.3%
4448424 101.1.15.3 ↗ alpha arrays › HTH › HTH › HAT1, C-terminal domain › HAT1_C_fung 0.73 54.0 4.23e-01 85.2% 37.4%
4517192 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.72 64.0 4.39e-01 100.0% 64.2%
4231508 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.72 58.0 5.51e-01 98.1% 75.4%
1395462 4953.1.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like 0.72 63.0 4.84e-01 100.0% 51.6%
3716291 142.1.1.0 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.71 63.0 5.34e-01 100.0% 85.6%
4200901 103.5.1.4 ↗ alpha arrays › RuvA-C › post-HMGL domain-like › post-HMGL domain-like › HCS_D2 0.71 57.0 4.57e-01 100.0% 45.7%
5077996 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 0.69 61.0 3.81e-01 98.1% 55.6%
5040357 5065.1.1.3 ↗ alpha bundles › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › BPD_transp_2 0.69 56.0 3.54e-01 94.4% 86.2%
3704554 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.68 56.0 4.93e-01 98.1% 63.6%
4244661 152.1.2.1 ↗ alpha arrays › RPB6/omega subunit-like › RPB6/omega subunit-like › RNA polymerase omega subunit › RNA_pol_Rpb6 0.68 59.0 5.72e-01 98.1% 96.7%
4591229 190.1.1.8 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › NUT 0.67 59.0 4.92e-01 100.0% 56.8%
5070580 181.1.1.0 ↗ 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 0.67 56.0 5.52e-01 100.0% 91.5%
2098376 191.1.1.0 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain 0.66 56.0 4.17e-01 100.0% 70.4%
3690556 148.1.1.0 ↗ alpha arrays › Histone-like › Histone-related › Histone 0.66 49.0 4.74e-01 85.2% 71.7%
3242033 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.66 46.0 3.86e-01 75.9% 41.0%
2665508 4126.1.1.1 ↗ a/b three-layered sandwiches › beta-carbonic anhydrase-like › beta-carbonic anhydrase › beta-carbonic anhydrase › Pro_CA 0.64 50.0 3.41e-01 88.9% 54.0%
4939237 4009.1.1.0 ↗ alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins 0.60 48.0 4.69e-01 100.0% 84.6%
3598883 138.1.1.0 ↗ alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain 0.60 51.0 4.30e-01 100.0% 55.3%
3248199 601.30.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Helical bundle domain in hypothetical protein PH1320 › Helical bundle domain in hypothetical protein PH1320 › NOG1_N 0.58 48.0 3.61e-01 100.0% 61.3%
4872404 138.1.1.2 ↗ alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › Rep_fac_C 0.57 47.0 4.55e-01 100.0% 79.7%
3597965 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.56 45.0 3.00e-01 92.6% 83.3%
3964004 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.56 47.0 3.21e-01 100.0% 29.4%
4945145 7579.1.1.42 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Hydrolase_4 0.56 48.0 3.01e-01 94.4% 58.9%
5051550 210.1.2.0 ↗ a+b four layers › Ntn/PP2C › Ntn › Penicillin acylase, catalytic domain 0.55 47.0 2.89e-01 100.0% 24.9%
4023166 7076.1.1.0 ↗ 0.54 46.0 4.34e-01 94.4% 80.0%
3600122 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.53 43.0 3.22e-01 94.4% 72.0%