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NC_049384.1__YP_009876936.1__HYP11_gp032__00032

Bact-Vir

NC_049384.1__YP_009876936.1__HYP11_gp032__00032

Identity

Accession:
NC_049384 ↗
Kingdom:
phage

Quality

81.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Ackermannviridae› Agtrevirus› Enterobacter_phage_EspM4VN

TaxID: 2137745

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 medium residues 48-104
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4cc9B00 1.20.5.4730 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.80 53.0 4.36e-01 70.2% 39.8%
3ecsC01 1.20.120.1070 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Translation initiation factor eIF-2B, N-terminal domain 0.78 69.0 5.74e-01 100.0% 60.0%
1cf7B00 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 0.77 66.0 5.95e-01 100.0% 76.8%
2qgnA02 1.10.287.890 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Crystal structure of tRNA isopentenylpyrophosphate transferase (bh2366) domain 0.76 48.0 4.24e-01 73.7% 45.1%
1icrA00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.75 64.0 4.29e-01 94.7% 41.2%
4hb9A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.73 54.0 3.26e-01 78.9% 82.1%
3crmA02 1.10.287.890 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Crystal structure of tRNA isopentenylpyrophosphate transferase (bh2366) domain 0.73 47.0 4.16e-01 82.5% 45.2%
2gsvA00 6.10.140.40 Special › Helix non-globular › Helix Hairpins › 0.73 61.0 5.83e-01 94.7% 95.5%
3r0qA02 2.70.160.11 Mainly Beta › Distorted Sandwich › Hnrnp arginine n-methyltransferase1 › Hnrnp arginine n-methyltransferase1 0.70 48.0 3.27e-01 71.9% 21.6%
2a3vB01 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.69 57.0 4.86e-01 100.0% 56.4%
3dd9D02 6.10.140.2060 Special › Helix non-globular › Helix Hairpins › 0.69 46.0 5.08e-01 70.2% 97.6%
3pubA01 1.10.10.2400 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Lepidopteran low molecular weight (30 kD) lipoprotein, N-terminal domain 0.69 48.0 4.44e-01 100.0% 56.8%
2khmA01 1.10.10.1350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Spidroin domain, C-terminal domain 0.69 59.0 4.85e-01 100.0% 55.6%
3cucA00 1.10.3290.10 Mainly Alpha › Orthogonal Bundle › Fic-like fold › Fido-like domain 0.68 58.0 3.78e-01 98.2% 43.9%
3bemB00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.68 56.0 3.78e-01 91.2% 38.8%
4u2vA02 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.67 55.0 4.91e-01 100.0% 65.0%
2w02B01 1.10.150.640 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › AcsD, thumb domain, helical bundle 0.64 53.0 4.80e-01 87.7% 70.3%
6e6oA00 1.20.50.10 Mainly Alpha › Up-down Bundle › Pheromone ER-1 › Pheromone ER-1 0.64 43.0 4.86e-01 100.0% 100.0%
3djbA01 1.10.472.50 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like 0.64 47.0 4.18e-01 93.0% 51.0%
2ds2D01 1.10.110.10 Mainly Alpha › Orthogonal Bundle › Hydrophobic Seed Protein › Plant lipid-transfer and hydrophobic proteins 0.63 50.0 5.07e-01 96.5% 94.7%
4jn7A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.63 48.0 3.94e-01 100.0% 42.0%
4fybA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.63 43.0 3.21e-01 73.7% 70.2%
2kz6A01 6.10.140.1310 Special › Helix non-globular › Helix Hairpins › 0.60 42.0 3.77e-01 100.0% 51.9%
2el7A02 1.10.240.10 Mainly Alpha › Orthogonal Bundle › Tyrosyl-Transfer RNA Synthetase › Tyrosyl-Transfer RNA Synthetase 0.60 40.0 3.44e-01 70.2% 90.4%
5mmiJ02 1.10.10.250 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Ribosomal protein L11/L12, C-terminal domain 0.59 49.0 4.73e-01 100.0% 98.6%
2i53A01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.59 48.0 3.74e-01 98.2% 39.9%
5djsA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.58 41.0 3.15e-01 86.0% 30.8%
6arhA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.58 45.0 2.97e-01 100.0% 18.0%
3u3iA02 1.20.58.1110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 48.0 4.02e-01 100.0% 62.0%
4aefA03 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.57 45.0 2.75e-01 87.7% 13.3%
2o2kA02 1.10.288.10 Mainly Alpha › Orthogonal Bundle › Cobalamin-dependent Methionine Synthase; domain 2 › Cobalamin-dependent Methionine Synthase, domain 2 0.57 45.0 3.98e-01 91.2% 66.3%
3b81A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 48.0 3.44e-01 100.0% 37.7%
1g2rA00 3.30.1230.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Cytosolic Protein; Chain: A; › YlxR-like 0.56 48.0 4.11e-01 100.0% 59.6%
2cr7A01 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.55 43.0 4.24e-01 93.0% 95.2%
3u9rB02 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.55 42.0 2.72e-01 94.7% 18.3%
1u9pA00 1.10.1220.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant › Met repressor-like 0.55 44.0 3.71e-01 87.7% 70.8%
3qnmA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.55 43.0 3.90e-01 94.7% 87.8%
1dgsA05 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.54 43.0 4.09e-01 94.7% 73.9%
4ipeB04 1.20.120.790 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Heat shock protein 90, C-terminal domain 0.54 41.0 3.20e-01 80.7% 71.4%
3zheA02 1.25.40.760 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.54 46.0 3.20e-01 100.0% 27.5%
2lzfA00 1.10.287.3030 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.53 44.0 4.26e-01 96.5% 85.3%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.53 38.0 3.46e-01 84.2% 55.8%
1n2aA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.53 39.0 3.16e-01 78.9% 41.5%
1sumB01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.52 45.0 3.75e-01 100.0% 82.2%
3vasA01 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.51 42.0 2.81e-01 100.0% 27.7%
2nr4A02 1.20.58.290 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hypothetical membrane protein ta0354_69_121. 0.51 39.0 3.96e-01 98.2% 89.7%
2rhmC00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 42.0 3.02e-01 100.0% 61.1%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2808456 3651.1.1.1 ↗ alpha bundles › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › IF-2B 0.80 71.0 5.77e-01 100.0% 55.6%
3166276 2008.1.1.67 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RecC_C 0.79 61.0 3.85e-01 100.0% 16.3%
5022018 4973.1.1.0 ↗ alpha bundles › helical domain in DNA primase DnaG catalytic core › helical domain in DNA primase DnaG catalytic core › helical domain in DNA primase DnaG catalytic core 0.79 62.0 5.79e-01 100.0% 70.0%
5045083 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.77 66.0 4.61e-01 100.0% 34.2%
5021741 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.74 57.0 5.36e-01 100.0% 68.6%
4951033 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.74 64.0 4.24e-01 100.0% 41.2%
4578262 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.74 58.0 4.78e-01 100.0% 47.6%
4046570 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 0.74 51.0 5.02e-01 80.7% 68.3%
5082367 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 0.74 49.0 4.76e-01 77.2% 61.5%
3824846 604.17.1.0 ↗ alpha bundles › Spectrin repeat-like › MTH_863 C-terminal domain-like › MTH_863 C-terminal domain-like 0.73 57.0 5.42e-01 100.0% 71.4%
4932863 101.1.2.947 ↗ alpha arrays › HTH › HTH › winged helix domain › PF27234 0.73 58.0 5.29e-01 100.0% 65.0%
5027755 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.71 55.0 5.04e-01 98.2% 63.7%
5005257 2.21.1.0 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.70 58.0 4.16e-01 100.0% 31.2%
3494078 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.69 59.0 5.73e-01 100.0% 89.2%
3947660 607.1.1.1 ↗ alpha arrays › Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain › Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain › Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain › PEP-utilisers_N 0.69 59.0 4.62e-01 98.2% 51.2%
3479514 101.1.2.318 ↗ alpha arrays › HTH › HTH › winged helix domain › HSD3 0.68 57.0 5.45e-01 100.0% 82.9%
3982565 101.1.1.202 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_21 0.68 56.0 5.68e-01 100.0% 100.0%
3739970 109.4.1.64 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › GET4 0.67 51.0 3.35e-01 98.2% 17.8%
3904155 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.67 56.0 5.09e-01 98.2% 80.0%
5024597 3962.1.1.0 ↗ alpha arrays › N-terminal helical domain in restriction-modification system methylation subunit-like › N-terminal helical domain in restriction-modification system methylation subunit › N-terminal helical domain in restriction-modification system methylation subunit 0.67 51.0 3.90e-01 86.0% 93.8%
4934293 4993.1.1.0 ↗ extended segments › Glu-tRNAGln amidotransferase C subunit › Glu-tRNAGln amidotransferase C subunit › Glu-tRNAGln amidotransferase C subunit 0.66 55.0 5.00e-01 100.0% 68.8%
4453525 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 0.64 45.0 4.33e-01 78.9% 64.6%
3821280 509.1.1.0 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain 0.63 43.0 4.03e-01 70.2% 64.3%
4927457 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.63 53.0 3.33e-01 100.0% 17.2%
3629288 101.1.10.34 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin_N+CycT2-like_C 0.63 49.0 3.27e-01 84.2% 36.7%
3932999 2007.2.3.21 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase, PTP-SAK 0.63 53.0 3.34e-01 100.0% 56.4%
5003459 101.1.2.19 ↗ alpha arrays › HTH › HTH › winged helix domain › Topoisom_bac 0.62 52.0 3.74e-01 100.0% 35.1%
3420431 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.62 40.0 3.47e-01 94.7% 44.7%
1144175 632.2.1.3 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › FIVAR 0.61 40.0 3.86e-01 94.7% 57.6%
3583380 101.1.2.558 ↗ alpha arrays › HTH › HTH › winged helix domain › CCD_aECM 0.61 49.0 4.90e-01 96.5% 91.7%
4359331 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.60 41.0 4.09e-01 84.2% 68.3%
4934145 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.60 48.0 4.11e-01 93.0% 92.0%
3970865 2006.1.1.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.60 44.0 2.98e-01 78.9% 50.7%
3657582 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.60 47.0 3.52e-01 91.2% 32.3%
4563321 604.9.1.1 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p 0.60 49.0 4.40e-01 94.7% 64.3%
3216460 101.1.11.175 ↗ alpha arrays › HTH › HTH › Ribbon-helix-helix › CCD_aECM 0.60 44.0 4.54e-01 91.2% 100.0%
3991367 101.1.2.558 ↗ alpha arrays › HTH › HTH › winged helix domain › CCD_aECM 0.59 48.0 4.84e-01 94.7% 98.2%
3971899 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.59 50.0 3.49e-01 100.0% 31.0%
4453951 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.58 35.0 3.41e-01 89.5% 53.8%
5053208 1134.1.1.0 ↗ alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain 0.57 50.0 4.94e-01 100.0% 95.0%
3282102 101.1.2.135 ↗ alpha arrays › HTH › HTH › winged helix domain › MarR_2 0.57 47.0 3.58e-01 98.2% 45.3%
3211345 101.1.2.558 ↗ alpha arrays › HTH › HTH › winged helix domain › CCD_aECM 0.57 46.0 4.61e-01 100.0% 96.7%
4057506 632.7.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.56 38.0 3.28e-01 89.5% 43.3%
3788743 604.12.1.2 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › Vta1 0.52 44.0 4.06e-01 96.5% 90.7%
3739307 604.12.1.56 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › ASTER 0.51 42.0 4.02e-01 94.7% 80.0%