Back to structures

thymidylate_synthase_pyrimidine_hydroxymethylase-like_protein

Euk-Vir

Esparto_virus

thymidylate_synthase_pyrimidine_hydroxymethylase-like_protein__YP_009551716__Esparto_virus__2072209

Identity

Accession:
YP_009551716 ↗
Protein ID:
thymidylate_synthase_pyrimidine_hydroxymethylase-like_protein
Kingdom:
euk

Quality

94.6 mean pLDDT

Taxonomy

TaxID: 2072209

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 25-47_122-251
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00303.25 best Thymidylat_synt 183.6 5.60e-54 85.6% 46.0%
CATH (21)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1bo7A00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.93 91.0 6.81e-01 100.0% 80.1%
1bkpA00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.91 88.0 6.94e-01 100.0% 73.4%
1tisA00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.90 88.0 6.84e-01 100.0% 74.5%
3egyX00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.87 84.0 7.07e-01 100.0% 73.9%
3v8hC00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.84 82.0 6.35e-01 100.0% 92.4%
1b5eA00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.83 79.0 6.61e-01 98.7% 85.1%
4zohA02 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.60 43.0 4.58e-01 84.3% 84.2%
2rrlA01 3.30.750.140 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › 0.57 40.0 4.55e-01 81.0% 96.5%
3dnsA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.57 37.0 3.96e-01 77.8% 75.6%
3fynA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 35.0 3.59e-01 83.0% 63.8%
3s3uB00 3.60.70.12 Alpha Beta › 4-Layer Sandwich › L-amino peptidase D-ALA esterase/amidase › L-amino peptidase D-ALA esterase/amidase 0.55 45.0 3.37e-01 85.6% 74.9%
3t9yA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.54 35.0 3.76e-01 95.4% 73.9%
1a6fA00 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.54 31.0 3.57e-01 77.1% 76.1%
2fkcA01 3.40.1350.40 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.54 22.0 2.62e-01 79.7% 51.8%
2aj6A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 34.0 3.82e-01 78.4% 81.7%
1nz0D00 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.52 29.0 3.35e-01 77.1% 73.0%
3axgK00 3.60.70.12 Alpha Beta › 4-Layer Sandwich › L-amino peptidase D-ALA esterase/amidase › L-amino peptidase D-ALA esterase/amidase 0.52 41.0 3.16e-01 84.3% 68.1%
4ga6A02 1.20.970.50 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › 0.51 36.0 3.70e-01 73.2% 92.1%
5f47B00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 36.0 3.68e-01 96.7% 73.0%
2euiA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 34.0 3.57e-01 83.7% 73.6%
2ob0C01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.50 34.0 3.36e-01 96.1% 64.2%
ECOD (47)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3203076 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.99 97.0 7.18e-01 100.0% 79.0%
3479792 266.1.1.0 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase 0.98 97.0 7.29e-01 100.0% 72.3%
2540892 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.98 96.0 7.09e-01 100.0% 68.1%
3944795 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.95 93.0 6.72e-01 100.0% 82.0%
4151800 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.94 92.0 7.01e-01 100.0% 79.6%
4228846 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.94 92.0 6.85e-01 100.0% 77.7%
4664958 266.1.1.0 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase 0.93 91.0 7.29e-01 100.0% 76.9%
5059575 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.93 90.0 7.00e-01 100.0% 76.2%
4108234 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.92 90.0 6.75e-01 100.0% 80.3%
4937005 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.92 89.0 6.61e-01 100.0% 82.4%
4225236 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.91 89.0 6.96e-01 100.0% 74.9%
3824671 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.91 89.0 6.97e-01 100.0% 76.1%
4086625 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.91 88.0 6.89e-01 100.0% 74.7%
3164619 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.91 88.0 6.90e-01 100.0% 76.7%
1900468 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.90 88.0 6.92e-01 100.0% 73.1%
4599962 266.1.1.0 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase 0.89 86.0 6.82e-01 100.0% 73.8%
4932636 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.87 83.0 7.20e-01 98.0% 85.6%
5068964 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.87 84.0 6.56e-01 100.0% 80.6%
4976145 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.87 77.0 6.61e-01 91.5% 81.3%
4582423 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.87 83.0 7.15e-01 98.0% 87.2%
5046158 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.87 79.0 7.11e-01 94.1% 86.0%
4938917 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.86 81.0 6.74e-01 97.4% 76.7%
4954631 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.86 81.0 6.90e-01 97.4% 88.3%
5022688 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.86 79.0 7.14e-01 95.4% 86.4%
5015648 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.86 79.0 7.04e-01 95.4% 86.8%
5050802 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.86 82.0 6.48e-01 99.3% 89.4%
2028021 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.86 83.0 6.29e-01 100.0% 63.9%
5031349 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.86 80.0 6.97e-01 96.7% 85.1%
4949404 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.85 81.0 6.85e-01 98.0% 82.2%
4974926 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.85 82.0 7.11e-01 99.3% 85.1%
3955287 266.1.1.0 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase 0.85 82.0 6.89e-01 100.0% 86.0%
4998171 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.84 80.0 6.81e-01 98.7% 79.6%
4985883 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.84 80.0 7.04e-01 98.7% 82.4%
1900473 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.83 79.0 6.56e-01 98.7% 83.3%
5001950 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.82 79.0 6.51e-01 100.0% 86.3%
5005700 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.82 76.0 7.24e-01 98.0% 84.6%
5065331 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.81 78.0 6.71e-01 100.0% 84.1%
4285107 2007.1.6.3 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Aminoacid dehydrogenase-like, N-terminal domain › ELFV_dehydrog_N 0.70 31.0 4.01e-01 83.0% 71.1%
3961326 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.62 60.0 5.54e-01 100.0% 85.4%
5020891 327.7.1.0 a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like 0.60 39.0 4.69e-01 82.4% 100.0%
4106259 2003.1.5.53 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.59 41.0 3.05e-01 71.2% 30.3%
4612674 2003.1.5.53 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.56 39.0 2.87e-01 71.2% 28.2%
4242917 2003.1.5.53 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.56 39.0 2.93e-01 70.6% 31.1%
4130138 2003.1.5.53 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.55 38.0 2.81e-01 70.6% 28.4%
3946802 213.1.1.27 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_7 0.52 36.0 3.84e-01 94.8% 79.3%
4972469 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.51 36.0 3.79e-01 97.4% 81.5%
None 0.50 38.0 3.28e-01 78.4% 76.2%
D2 medium residues 48-69_106-121_252-297
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1tisA00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.82 75.0 5.07e-01 100.0% 84.3%
1bo7A00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.79 74.0 4.85e-01 100.0% 85.1%
3egyX00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.78 71.0 4.91e-01 95.2% 79.1%
7m7iA02 3.30.70.3290 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 37.0 3.91e-01 76.2% 97.3%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3479792 266.1.1.0 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase 0.85 80.0 5.20e-01 97.6% 76.5%
4228846 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.85 80.0 5.20e-01 100.0% 86.1%
2540892 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.85 81.0 5.20e-01 100.0% 72.9%
3164619 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.83 78.0 5.22e-01 100.0% 83.4%
4664958 266.1.1.0 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase 0.82 78.0 5.25e-01 100.0% 83.0%
4151800 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.81 78.0 5.07e-01 100.0% 84.5%
4108234 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.80 74.0 4.79e-01 97.6% 84.7%
4225236 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.79 75.0 5.00e-01 100.0% 80.6%
4937005 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.78 73.0 4.71e-01 100.0% 86.6%