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gwa1_scaffold_31_prodigal-single.1__X__X__00252
Bact-Virgwa1_scaffold_31_prodigal-single.1__X__X__00252
3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
high
residues 9-138
Domain cluster:
rep: SRR1747018_scaffold_2_1202_curated_prodigal-single.1__X__X__00178__D463-610
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF03734.20 best | YkuD | 57.2 | 4.10e-15 | 99.2% | 98.6% |
CATH (11)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4lpqA02 | 2.40.440.10 | Mainly Beta › Beta Barrel › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like | 0.89 | 80.0 | 8.08e-01 | 100.0% | 94.6% |
| 4z7aA03 | 2.40.440.10 | Mainly Beta › Beta Barrel › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like | 0.87 | 75.0 | 7.49e-01 | 100.0% | 88.5% |
| 1zatA02 | 2.40.440.10 | Mainly Beta › Beta Barrel › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like | 0.86 | 78.0 | 8.06e-01 | 100.0% | 99.2% |
| 3tx4A02 | 2.40.440.10 | Mainly Beta › Beta Barrel › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like | 0.85 | 79.0 | 7.67e-01 | 100.0% | 88.7% |
| 2mtzA02 | 2.40.440.10 | Mainly Beta › Beta Barrel › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like | 0.84 | 67.0 | 7.03e-01 | 100.0% | 90.8% |
| 7mi4A02 | 3.100.10.20 | Alpha Beta › Ribosomal Protein L15; Chain: K; domain 2 › Ribosomal Protein L15; Chain: K; domain 2 › CRISPR-associated endonuclease Cas1, N-terminal domain | 0.75 | 26.0 | 3.45e-01 | 100.0% | 55.4% |
| 6xj6A01 | 2.40.440.10 | Mainly Beta › Beta Barrel › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like | 0.71 | 67.0 | 6.22e-01 | 100.0% | 85.9% |
| 3djcB01 | 3.30.420.40 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain | 0.69 | 34.0 | 4.08e-01 | 100.0% | 70.5% |
| 2h3gX01 | 3.30.420.40 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain | 0.67 | 34.0 | 4.07e-01 | 100.0% | 71.6% |
| 1y9zA02 | 3.50.30.30 | Alpha Beta › 3-Layer(bba) Sandwich › Glucose Oxidase; domain 1 › | 0.57 | 50.0 | 4.83e-01 | 95.4% | 98.6% |
| 2q2tA03 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.51 | 34.0 | 3.67e-01 | 76.9% | 82.1% |
ECOD (36)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3968640 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.96 | 80.0 | 8.19e-01 | 100.0% | 88.8% |
| 3957156 | 4091.1.1.0 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like | 0.92 | 75.0 | 7.50e-01 | 100.0% | 83.1% |
| 1681707 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.90 | 72.0 | 7.01e-01 | 100.0% | 75.9% |
| 1558018 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.90 | 75.0 | 7.57e-01 | 100.0% | 86.2% |
| 1120883 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.89 | 80.0 | 8.08e-01 | 100.0% | 94.6% |
| 3960486 | 4091.1.1.0 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like | 0.88 | 80.0 | 7.53e-01 | 100.0% | 81.3% |
| 1220824 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.85 | 79.0 | 7.04e-01 | 100.0% | 72.4% |
| 3961651 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.84 | 56.0 | 6.41e-01 | 71.5% | 88.0% |
| 3964337 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.84 | 80.0 | 6.70e-01 | 100.0% | 65.5% |
| 1498421 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.83 | 71.0 | 6.76e-01 | 100.0% | 77.9% |
| 4302389 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.82 | 76.0 | 7.42e-01 | 100.0% | 90.6% |
| 997880 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.82 | 75.0 | 7.55e-01 | 100.0% | 96.1% |
| 4679621 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.81 | 77.0 | 7.65e-01 | 100.0% | 97.8% |
| None | — | 0.81 | 77.0 | 7.31e-01 | 100.0% | 90.7% | |
| 3974213 | 4091.1.1.0 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like | 0.81 | 77.0 | 7.39e-01 | 100.0% | 93.8% |
| 3981189 | 3743.1.1.0 ↗ | a+b two layers › L,D-transpeptidase C-terminal domain › L,D-transpeptidase C-terminal domain › L,D-transpeptidase C-terminal domain | 0.81 | 77.0 | 6.25e-01 | 100.0% | 60.4% |
| 4410211 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.81 | 76.0 | 7.64e-01 | 100.0% | 98.4% |
| 3163824 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.80 | 76.0 | 5.80e-01 | 100.0% | 71.6% |
| 2819641 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.79 | 75.0 | 6.09e-01 | 100.0% | 86.3% |
| 4396276 | 2484.1.1.0 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like | 0.77 | 31.0 | 3.58e-01 | 100.0% | 50.0% |
| 3958193 | 4091.1.1.0 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like | 0.75 | 70.0 | 6.64e-01 | 97.7% | 93.3% |
| 3969743 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.74 | 71.0 | 6.93e-01 | 100.0% | 97.9% |
| 2724185 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.73 | 69.0 | 6.43e-01 | 100.0% | 83.3% |
| 1684827 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.72 | 68.0 | 6.51e-01 | 100.0% | 91.1% |
| 2722109 | 4091.1.1.1 ↗ | beta complex topology › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › L,D-transpeptidase catalytic domain-like › YkuD | 0.70 | 67.0 | 6.03e-01 | 100.0% | 79.3% |
| 4471876 | 2484.1.1.37 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase | 0.68 | 34.0 | 3.59e-01 | 100.0% | 52.5% |
| 4654430 | 2484.1.1.37 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase | 0.67 | 34.0 | 3.41e-01 | 100.0% | 46.7% |
| 4096721 | 2484.1.1.37 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase | 0.67 | 34.0 | 3.54e-01 | 100.0% | 51.2% |
| 4962902 | 2484.1.1.0 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like | 0.62 | 32.0 | 3.67e-01 | 100.0% | 65.0% |
| 4357396 | 2.1.1.84 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Prot_ATP_ID_OB_N | 0.60 | 31.0 | 3.39e-01 | 96.2% | 57.3% |
| 3476482 | 2487.1.1.7 ↗ | a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" › PA | 0.58 | 50.0 | 4.83e-01 | 94.6% | 94.7% |
| 3989835 | 2484.1.1.0 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like | 0.57 | 37.0 | 3.87e-01 | 100.0% | 71.7% |
| 3424294 | 2484.1.1.0 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like | 0.57 | 33.0 | 3.91e-01 | 100.0% | 83.3% |
| 3513137 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.52 | 31.0 | 3.39e-01 | 96.2% | 70.0% |
| 4932579 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.50 | 33.0 | 3.38e-01 | 94.6% | 69.1% |
| 4093483 | 2.1.1.294 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › TipE | 0.50 | 33.0 | 3.65e-01 | 76.9% | 85.0% |