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OM868082.1__UPT53407.1__X__00037

Bact-Vir

OM868082.1__UPT53407.1__X__00037

Identity

Accession:
OM868082 ↗
Kingdom:
phage

Quality

78.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Synechococcus_phage_Yong-M2-251

TaxID: 2928846

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 49-137
PDB
Domain cluster: rep: NC_048832.1__YP_009854700.1__HWC88_gp48__00048__D42-135
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1pc6A00 1.10.3790.10 Mainly Alpha › Orthogonal Bundle › NinB fold › NinB 0.68 61.0 5.24e-01 100.0% 63.8%
4y66F01 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 0.67 26.0 3.04e-01 92.1% 47.0%
3htuA00 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 29.0 3.16e-01 93.3% 53.3%
3jcmH04 3.30.70.870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Elongation Factor G (Translational Gtpase), domain 3 0.58 41.0 4.38e-01 98.9% 85.7%
4ritA01 3.90.1150.170 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › 0.57 45.0 3.36e-01 85.4% 42.2%
5eo6B00 3.40.1500.10 Alpha Beta › 3-Layer(aba) Sandwich › oxygen-dependent coproporphyrinogen oxidase › Coproporphyrinogen III oxidase, aerobic 0.56 44.0 3.14e-01 87.6% 68.7%
6liuC02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.56 46.0 4.21e-01 88.8% 82.8%
3mwmA01 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 0.56 31.0 3.41e-01 77.5% 65.3%
3madA02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.55 45.0 3.98e-01 88.8% 64.9%
1js3A03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.55 44.0 4.34e-01 88.8% 93.8%
3l4gB03 3.30.56.10 Alpha Beta › 2-Layer Sandwich › Phenylalanyl-tRNA Synthetase; Chain B, domain 1 › 0.54 40.0 4.30e-01 88.8% 93.2%
3hh8A01 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.54 48.0 4.04e-01 98.9% 91.3%
4obuA01 3.90.1150.170 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › 0.54 44.0 3.29e-01 89.9% 40.6%
5o5cB02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.54 44.0 3.91e-01 89.9% 71.1%
2kfpA00 3.90.1150.30 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › 0.54 43.0 3.94e-01 89.9% 93.6%
2kjwA00 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.54 42.0 4.15e-01 100.0% 79.2%
1u5tB02 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 0.53 31.0 3.43e-01 77.5% 72.5%
3wl5A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.53 42.0 2.93e-01 88.8% 73.7%
2qmaA02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.53 42.0 3.80e-01 86.5% 71.2%
7xinA03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.52 41.0 3.87e-01 85.4% 85.3%
4e1oA03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.52 43.0 4.21e-01 89.9% 92.9%
1zodA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.52 42.0 3.60e-01 87.6% 70.2%
4gm2A00 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 0.52 38.0 3.04e-01 78.7% 65.0%
4dsfA04 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.51 31.0 2.96e-01 83.1% 49.1%
3dxvA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.51 41.0 3.46e-01 87.6% 63.8%
5gmdA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.51 41.0 3.50e-01 86.5% 66.9%
4hcjA00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.51 41.0 3.31e-01 87.6% 88.4%
2x9oA00 3.40.1500.20 Alpha Beta › 3-Layer(aba) Sandwich › oxygen-dependent coproporphyrinogen oxidase › 0.50 43.0 3.24e-01 96.6% 78.1%
2ebbA00 3.30.1360.20 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Transcriptional coactivator/pterin dehydratase 0.50 37.0 3.70e-01 89.9% 75.0%
3uoxB01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.50 41.0 2.88e-01 89.9% 69.2%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5079949 829.1.1.3 ↗ a+b duplicates or obligate multimers › NinB › NinB › NinB › DUF1367 0.81 74.0 7.28e-01 100.0% 95.8%
3980273 829.1.1.3 ↗ a+b duplicates or obligate multimers › NinB › NinB › NinB › DUF1367 0.79 72.0 6.37e-01 100.0% 77.6%
3981752 829.1.1.1 ↗ a+b duplicates or obligate multimers › NinB › NinB › NinB › NinB 0.73 65.0 5.65e-01 95.5% 67.7%
7698 829.1.1.1 ↗ a+b duplicates or obligate multimers › NinB › NinB › NinB › NinB 0.68 61.0 5.24e-01 100.0% 63.8%
5072739 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.60 43.0 4.41e-01 88.8% 77.6%
3668622 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 47.0 4.14e-01 89.9% 81.5%
4420155 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 0.57 47.0 4.38e-01 88.8% 81.8%
5075529 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.56 46.0 4.09e-01 89.9% 73.6%
4400687 2004.1.1.782 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_23, AAA_29, SbcC_Walker_B 0.56 49.0 3.15e-01 97.8% 57.0%
5009130 2004.1.1.198 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.56 49.0 3.31e-01 97.8% 45.2%
1401968 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 0.56 45.0 4.19e-01 89.9% 85.2%
3597807 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 0.55 45.0 4.02e-01 89.9% 70.0%
5004807 2004.1.1.198 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.55 46.0 3.04e-01 93.3% 59.5%
4365992 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 0.55 45.0 4.27e-01 88.8% 86.7%
4961335 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 0.55 44.0 4.23e-01 88.8% 100.0%
4509115 107.1.1.2 ↗ alpha arrays › Cytochrome c-like › Cytochrome c › Cytochrome c › Cytochrom_C1 0.55 44.0 3.24e-01 88.8% 84.8%
4509594 304.28.1.2 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › Sec_GG 0.55 44.0 4.49e-01 100.0% 91.8%
4427482 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 0.55 46.0 4.33e-01 94.4% 85.5%
4217176 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 0.55 44.0 4.30e-01 88.8% 91.0%
3958860 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 0.55 44.0 4.15e-01 88.8% 87.0%
3701167 304.151.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain of receptor-type protein tyrosine phosphatase › Ferredoxin-like domain of receptor-type protein tyrosine phosphatase 0.54 48.0 4.31e-01 98.9% 95.2%
4880817 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 0.54 44.0 4.02e-01 88.8% 80.7%
4928783 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 0.54 37.0 4.21e-01 85.4% 100.0%
4331101 304.28.1.2 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › Sec_GG 0.54 45.0 4.63e-01 100.0% 96.5%
3350503 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.54 39.0 4.03e-01 98.9% 81.2%
3500240 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 0.54 44.0 4.11e-01 88.8% 81.8%
3578125 3016.1.1.4 ↗ 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 › Pyridoxal_deC 0.54 44.0 3.89e-01 88.8% 70.8%
3905174 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 0.54 44.0 4.13e-01 88.8% 82.7%
3216641 3016.1.1.4 ↗ 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 › Pyridoxal_deC 0.54 44.0 4.01e-01 89.9% 73.3%
4319282 101.1.9.5 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › B5 0.53 41.0 4.18e-01 97.8% 82.2%
1152767 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 0.53 42.0 4.01e-01 86.5% 83.2%
4424185 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 0.53 43.0 4.08e-01 89.9% 97.2%
3507104 304.20.1.2 ↗ a+b two layers › Alpha-beta plaits › PAP/Archaeal CCA-adding enzyme, C-terminal domain › PAP/Archaeal CCA-adding enzyme, C-terminal domain › Nrap_D3 0.53 46.0 3.80e-01 100.0% 97.6%
5057313 3352.1.1.2 ↗ alpha bundles › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › PMT_2 0.53 43.0 2.85e-01 89.9% 69.4%
3221750 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 0.53 41.0 4.03e-01 85.4% 85.0%
5026577 102.1.2.1 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › DNA-glycosylase › HhH-GPD 0.53 45.0 3.44e-01 100.0% 45.1%
4294054 847.1.1.1 ↗ a+b complex topology › YopH tyrosine phosphatase N-terminal domain › YopH tyrosine phosphatase N-terminal domain › YopH tyrosine phosphatase N-terminal domain › YopH_N 0.53 38.0 3.51e-01 87.6% 60.0%
4979180 101.1.2.37 ↗ alpha arrays › HTH › HTH › winged helix domain › E2F_TDP 0.53 38.0 3.47e-01 77.5% 100.0%
3247221 3016.1.1.4 ↗ 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 › Pyridoxal_deC 0.53 42.0 3.83e-01 88.8% 72.8%
3926804 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.52 40.0 4.05e-01 80.9% 97.8%
3960541 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.52 38.0 4.02e-01 98.9% 86.3%
3282392 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 0.52 41.0 4.17e-01 86.5% 100.0%
3713128 304.120.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI 0.52 38.0 4.25e-01 100.0% 100.0%
4097938 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 0.52 42.0 3.98e-01 88.8% 82.7%
3801312 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 0.52 42.0 4.26e-01 89.9% 97.8%
3795358 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.52 38.0 4.08e-01 94.4% 92.0%
3211086 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 0.52 41.0 3.74e-01 85.4% 65.0%
3591326 7579.1.1.6 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Abhydrolase_1 0.52 42.0 2.84e-01 88.8% 71.8%
None — 0.51 46.0 3.10e-01 100.0% 61.7%
3221080 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 0.51 41.0 3.81e-01 88.8% 67.8%
1192836 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 0.51 41.0 3.74e-01 87.6% 80.8%
4137380 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 0.51 40.0 3.06e-01 84.3% 60.0%
3284992 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 0.51 40.0 4.11e-01 87.6% 100.0%
3579622 331.4.1.0 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.50 44.0 4.10e-01 96.6% 95.5%
4104601 327.19.1.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › DNA mismatch repair protein MutL regulatory subdomain › DNA mismatch repair protein MutL regulatory subdomain › MutL_C 0.50 35.0 3.65e-01 87.6% 77.6%
2639388 101.1.2.455 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_CDT1 0.50 37.0 3.25e-01 78.7% 84.7%
4978940 327.11.2.5 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_8 0.50 37.0 3.86e-01 89.9% 83.5%
4115648 3671.1.1.1 ↗ alpha duplicates or obligate multimers › Translocated intimin receptor Tir extracellular domain › Translocated intimin receptor Tir extracellular domain › Translocated intimin receptor Tir extracellular domain › Tir_receptor_M 0.50 35.0 3.62e-01 73.0% 76.5%
D2 high residues 187-270
PDB
Domain cluster: rep: KT724718.1__ALJ98266.1__BiPBO1_52__00052__D356-437