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OM868079.1__UPT53150.1__X__00025

Bact-Vir

OM868079.1__UPT53150.1__X__00025

Identity

Accession:
OM868079 ↗
Kingdom:
phage

Quality

88.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Synechococcus_phage_Yong-M4-211

TaxID: 2928849

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 high residues 1-68
PDB
Domain cluster: representative
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3e3vA03 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 0.66 50.0 5.43e-01 100.0% 100.0%
4uw9A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.65 54.0 5.14e-01 94.1% 83.1%
2lrdA00 1.10.10.1840 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.65 43.0 4.54e-01 92.6% 77.0%
2uv8A07 6.10.140.1410 Special › Helix non-globular › Helix Hairpins › 0.65 44.0 4.12e-01 82.4% 56.5%
2vkzA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.65 44.0 2.95e-01 82.4% 18.3%
2d2sA01 1.20.58.1210 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Exo84p, N-terminal helical domain 0.64 40.0 3.35e-01 92.6% 36.2%
3h36A00 1.10.10.400 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain 0.62 53.0 5.16e-01 98.5% 84.6%
1vhnA02 1.10.1200.80 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Putative flavin oxidoreducatase; domain 2 0.61 50.0 4.92e-01 92.6% 85.9%
3v53E00 1.20.1390.10 Mainly Alpha › Up-down Bundle › PWI domain › PWI domain 0.59 41.0 3.69e-01 100.0% 50.0%
7s0rB01 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.58 42.0 4.10e-01 76.5% 75.0%
7e5aB02 1.20.1000.10 Mainly Alpha › Up-down Bundle › Signaling Protein - Interferon-induced Guanylate-binding Protein 1; Chain A, domain 1 › Guanylate-binding protein, C-terminal domain 0.58 49.0 3.76e-01 95.6% 40.9%
4ap2B01 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.58 44.0 3.64e-01 85.3% 88.1%
2m3aA00 1.10.10.1900 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Knl-2 Myb-like DNA-binding domain-like 0.57 46.0 4.66e-01 97.1% 94.0%
3oxfA05 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.56 39.0 3.80e-01 89.7% 65.3%
4cqiA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 39.0 3.39e-01 91.2% 46.7%
2gomA00 1.10.10.1270 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Sbi, C3 binding domain IV 0.55 37.0 3.91e-01 98.5% 78.7%
1skvA00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.55 39.0 4.05e-01 89.7% 79.7%
1r3dA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.55 46.0 3.22e-01 100.0% 38.1%
4akgA14 1.20.1280.160 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.54 46.0 4.05e-01 100.0% 100.0%
3p0hB02 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.54 43.0 2.91e-01 92.6% 67.7%
2np5D00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 46.0 3.59e-01 100.0% 60.1%
2icwG01 1.20.120.390 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hla class ii histocompatibility antigen, dr alpha chain. Chain D, domain 1 0.54 43.0 3.64e-01 92.6% 93.5%
3iqtA01 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.53 45.0 3.89e-01 97.1% 93.9%
2i53A01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.53 46.0 3.67e-01 100.0% 74.8%
1tk5A04 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.53 36.0 3.26e-01 92.6% 49.5%
3r84A00 1.10.287.3490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.52 38.0 3.54e-01 80.9% 63.0%
6o0aA01 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.52 44.0 3.54e-01 100.0% 82.6%
7zdtD01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.52 43.0 2.86e-01 97.1% 48.2%
1v9mA01 1.10.132.50 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › ATP synthase (C/AC39) subunit, domain 3 0.50 43.0 3.70e-01 100.0% 73.0%
2yw6B00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.50 42.0 3.30e-01 100.0% 42.7%
1cnt200 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.50 43.0 3.46e-01 94.1% 90.8%
3t0yA02 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 35.0 3.69e-01 91.2% 81.7%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4993593 198.1.1.27 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like › PF27234 0.74 57.0 5.43e-01 100.0% 70.0%
3969653 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 0.70 47.0 4.52e-01 70.6% 62.5%
4531960 247.1.1.1 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B 0.67 55.0 3.64e-01 100.0% 22.1%
3278774 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 0.65 44.0 3.80e-01 70.6% 43.8%
3937288 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.61 56.0 5.15e-01 100.0% 82.4%
4978899 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.60 54.0 5.11e-01 98.5% 91.3%
4290271 604.9.1.1 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p 0.58 45.0 4.15e-01 94.1% 64.4%
3838083 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.57 40.0 3.99e-01 97.1% 70.0%
4988832 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.56 40.0 4.15e-01 89.7% 80.0%
4994779 7000.1.1.0 ↗ alpha arrays › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS 0.55 46.0 4.33e-01 94.1% 92.9%
3970512 5086.1.1.189 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_CzcB 0.53 38.0 3.65e-01 85.3% 66.7%
4258322 5086.1.1.189 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_CzcB 0.52 37.0 3.69e-01 85.3% 71.4%
3453972 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.52 40.0 3.11e-01 97.1% 39.3%
3981585 5086.1.1.84 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_MFP_RND 0.52 36.0 3.56e-01 80.9% 66.7%
4663904 3567.1.1.0 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.52 40.0 3.50e-01 82.4% 100.0%
3395229 192.15.1.115 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Use1 0.52 41.0 4.11e-01 94.1% 84.3%
5053145 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.52 41.0 4.13e-01 88.2% 82.9%
5048929 605.6.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › HP1531-like › HP1531-like 0.51 40.0 4.05e-01 88.2% 82.9%
D2 high residues 86-149
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1w36B03 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.67 51.0 3.28e-01 84.4% 17.4%
1ei6A01 3.40.720.10 Alpha Beta › 3-Layer(aba) Sandwich › Alkaline Phosphatase, subunit A › Alkaline Phosphatase, subunit A 0.65 45.0 2.87e-01 71.9% 72.4%
4jixB00 3.30.2010.10 Alpha Beta › 2-Layer Sandwich › Zincin-like › "Metalloproteases (""zincins""), catalytic domain" 0.55 37.0 3.22e-01 71.9% 65.4%
1r6xA02 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.54 40.0 2.83e-01 79.7% 46.0%
3lxqA01 3.30.1120.80 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.53 37.0 3.27e-01 75.0% 93.9%
1jovA00 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.52 39.0 2.66e-01 84.4% 36.1%
2khoA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.51 36.0 2.76e-01 75.0% 50.3%
2bc0A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 36.0 2.51e-01 75.0% 84.3%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
None — 0.80 60.0 4.32e-01 78.1% 37.6%
3887831 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.80 60.0 5.64e-01 78.1% 82.7%
5060491 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.79 64.0 5.04e-01 92.2% 45.0%
3616216 904.1.1.0 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain 0.79 59.0 4.88e-01 78.1% 61.0%
3882962 904.1.1.22 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box, TRIM_CC 0.79 59.0 3.99e-01 78.1% 30.2%
3905324 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.78 58.0 4.01e-01 78.1% 31.3%
3918607 904.1.1.22 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box, TRIM_CC 0.78 59.0 4.01e-01 78.1% 31.3%
4019392 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.78 45.0 2.76e-01 79.7% 10.1%
3927608 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.77 58.0 3.91e-01 78.1% 30.2%
3883430 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.77 61.0 4.86e-01 82.8% 55.7%
3920380 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.76 60.0 4.13e-01 82.8% 32.8%
3748684 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.76 57.0 3.87e-01 78.1% 29.8%
3530428 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.76 56.0 4.94e-01 78.1% 68.9%
3906152 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.71 56.0 4.04e-01 82.8% 36.4%
3658365 3543.1.1.4 ↗ alpha complex topology › Acid-activated urea channel › Acid-activated urea channel › Acid-activated urea channel › DUF716 0.71 66.0 4.18e-01 100.0% 42.1%
3534227 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.71 52.0 3.64e-01 78.1% 30.2%
3524167 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.70 56.0 3.90e-01 85.9% 30.8%
3894188 904.1.1.22 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box, TRIM_CC 0.69 55.0 3.82e-01 85.9% 29.5%
3215545 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.69 56.0 3.55e-01 89.1% 35.9%
3865540 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.66 62.0 4.39e-01 100.0% 44.6%
4154153 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.66 61.0 4.20e-01 98.4% 40.0%
3528834 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.65 61.0 4.26e-01 100.0% 42.7%
3913899 904.1.1.22 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box, TRIM_CC 0.65 61.0 4.59e-01 100.0% 51.4%
3540735 904.1.1.22 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box, TRIM_CC 0.65 55.0 3.74e-01 90.6% 30.2%
3879403 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.64 59.0 4.05e-01 98.4% 38.0%
3883863 904.1.1.22 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box, TRIM_CC 0.64 58.0 3.99e-01 98.4% 33.7%
3922079 904.1.1.22 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box, TRIM_CC 0.64 59.0 4.27e-01 100.0% 44.8%
3895782 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.64 59.0 5.43e-01 100.0% 93.8%
3886859 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.64 60.0 5.47e-01 100.0% 93.8%
3938021 904.1.1.0 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain 0.64 47.0 3.40e-01 85.9% 27.8%
3844420 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.64 57.0 5.33e-01 100.0% 91.3%
3914288 904.1.1.22 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box, TRIM_CC 0.63 57.0 3.93e-01 100.0% 34.4%
3777527 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.63 58.0 4.23e-01 100.0% 43.0%
3778699 904.1.1.22 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box, TRIM_CC 0.63 57.0 3.96e-01 100.0% 35.6%
3886813 233.1.1.0 ↗ a+b two layers › MHC antigen-recognition domain › MHC antigen-recognition domain › MHC antigen-recognition domain 0.62 48.0 4.33e-01 81.2% 76.5%
3919015 3860.1.1.204 ↗ alpha bundles › Myosin VI lever arm › Myosin VI lever arm › Myosin VI lever arm › zf-B_box, TRIM_CC 0.62 58.0 4.24e-01 100.0% 46.5%
3566057 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.62 50.0 4.63e-01 87.5% 78.8%
3908640 904.1.1.22 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box, TRIM_CC 0.62 56.0 3.84e-01 100.0% 33.8%
3898335 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.60 54.0 4.20e-01 98.4% 51.9%
3843762 5086.1.1.227 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › zf-B_box, TRIM_CC 0.60 56.0 3.81e-01 100.0% 38.5%
3522313 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.60 50.0 3.55e-01 95.3% 34.8%
4552707 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.60 55.0 3.87e-01 100.0% 38.9%
4936585 2003.1.4.5 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › DHS-like NAD/FAD-binding domain › SIR2 0.57 45.0 3.16e-01 93.8% 54.9%
3898469 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.57 51.0 3.56e-01 98.4% 37.9%
4012767 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.54 43.0 2.81e-01 93.8% 89.0%