←Back to structures

ON453894.1__WAK79009.1__X__00041

Bact-Vir

ON453894.1__WAK79009.1__X__00041

Identity

Accession:
ON453894 ↗
Kingdom:
phage

Quality

76.9 mean pLDDT

Taxonomy

Akkermansia_phage_Chambord

TaxID: 2951966

Cluster

View cluster (2 members)

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 21-65
PDB
Domain cluster: representative
CATH (24)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3anwA02 3.40.5.50 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.88 80.0 7.30e-01 100.0% 87.9%
2hvfA00 3.40.5.10 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › Ribosomal protein L9, N-terminal domain 0.86 70.0 6.68e-01 95.6% 76.9%
2e9xD02 3.40.5.60 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.84 71.0 6.50e-01 95.6% 90.0%
3anwB00 1.20.58.2050 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.83 78.0 5.10e-01 100.0% 43.8%
2e9xB01 3.40.5.50 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.82 73.0 6.39e-01 100.0% 75.8%
2hjqA01 3.40.5.20 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › YqbF domain 0.76 64.0 6.39e-01 100.0% 100.0%
4fsdA02 3.40.5.100 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.70 58.0 4.86e-01 100.0% 64.0%
3pvlA05 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.66 56.0 4.78e-01 97.8% 82.9%
2kt9A01 3.30.390.140 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.65 44.0 3.50e-01 71.1% 61.6%
3m6uA01 3.30.70.1170 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sun protein; domain 3 0.64 54.0 4.49e-01 100.0% 67.4%
2czrA02 3.90.79.30 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › TBP-interacting protein, C-terminal domain 0.64 44.0 3.30e-01 73.3% 65.8%
2qswA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.62 50.0 4.21e-01 100.0% 85.6%
1tq5A01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 50.0 3.94e-01 100.0% 43.5%
7npaA02 3.30.70.3340 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 48.0 4.13e-01 100.0% 96.5%
1y7xA01 2.30.30.550 Mainly Beta › Roll › SH3 type barrels. › Major Vault Protein repeat 0.60 49.0 4.91e-01 100.0% 91.5%
3o14A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.59 49.0 3.23e-01 100.0% 22.1%
2q1zB02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.59 48.0 3.97e-01 100.0% 52.7%
2hpuA02 3.30.70.2050 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 43.0 4.01e-01 97.8% 63.5%
6scxC01 3.90.79.20 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › 0.56 47.0 3.27e-01 100.0% 45.9%
2hfqA00 3.10.510.10 Alpha Beta › Roll › NE1680-like fold › NE1680-like 0.55 46.0 3.83e-01 100.0% 68.2%
4njcA00 3.10.20.730 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNAP, epsilon subunit-like 0.54 46.0 4.23e-01 100.0% 73.3%
3pdwA02 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.54 38.0 3.11e-01 77.8% 93.8%
3cxgA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.53 35.0 2.75e-01 71.1% 29.5%
1ul7A00 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.51 38.0 3.01e-01 82.2% 89.2%
ECOD (78)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4932593 4076.3.1.5 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.92 82.0 7.92e-01 95.6% 98.0%
4935547 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.92 83.0 7.94e-01 95.6% 96.0%
3977355 4076.3.1.1 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Packaging_FI 0.92 81.0 7.61e-01 95.6% 94.4%
4982789 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.91 79.0 6.85e-01 93.3% 70.8%
5042275 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.91 80.0 7.45e-01 95.6% 89.1%
4927873 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.91 81.0 7.22e-01 95.6% 76.7%
4947954 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.90 82.0 7.12e-01 97.8% 75.4%
4566383 4076.3.1.8 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › PSF2_N 0.90 82.0 7.19e-01 100.0% 76.9%
5026920 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.90 79.0 7.13e-01 95.6% 81.7%
4991614 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.90 79.0 7.35e-01 95.6% 80.0%
4994655 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.90 79.0 7.59e-01 95.6% 98.0%
4991671 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.89 77.0 7.44e-01 93.3% 98.0%
4978275 4076.3.1.5 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.89 83.0 7.67e-01 100.0% 92.7%
4973337 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.89 82.0 7.61e-01 100.0% 90.9%
4030073 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.89 82.0 5.46e-01 100.0% 34.2%
5035786 4076.3.1.5 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.89 81.0 7.77e-01 97.8% 100.0%
5010674 4076.3.1.11 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › PF25865 0.89 80.0 7.40e-01 100.0% 80.0%
4951589 4076.3.1.5 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.89 78.0 7.54e-01 95.6% 96.0%
4981952 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.89 82.0 7.93e-01 100.0% 96.0%
4956746 4076.3.1.5 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.89 80.0 7.74e-01 97.8% 100.0%
3716713 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.88 78.0 7.55e-01 95.6% 96.0%
4946969 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.88 79.0 7.67e-01 97.8% 100.0%
5045837 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.88 80.0 7.14e-01 97.8% 81.7%
4943471 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.88 80.0 7.47e-01 100.0% 94.5%
4939413 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.88 75.0 7.28e-01 93.3% 100.0%
5069341 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.88 77.0 7.43e-01 95.6% 96.0%
5066664 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.87 74.0 7.41e-01 91.1% 97.8%
5011186 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.87 78.0 7.02e-01 97.8% 80.0%
4932084 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.87 79.0 7.67e-01 100.0% 100.0%
5069643 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.87 80.0 7.53e-01 100.0% 94.3%
4999890 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.87 80.0 7.19e-01 100.0% 81.7%
3683742 4076.3.1.8 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › PSF2_N 0.87 75.0 6.81e-01 95.6% 75.0%
5028408 4076.3.1.5 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.87 78.0 7.54e-01 97.8% 100.0%
5055750 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.87 76.0 7.33e-01 95.6% 96.0%
3818732 4076.3.1.9 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › PSF1_C 0.87 77.0 7.15e-01 97.8% 89.1%
4956745 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.86 75.0 7.27e-01 95.6% 96.0%
3296816 4076.3.1.6 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › GINS_N 0.86 79.0 7.10e-01 100.0% 83.3%
5037502 4076.3.1.5 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.86 78.0 7.27e-01 97.8% 92.6%
5015232 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.86 79.0 7.32e-01 100.0% 89.1%
5044171 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.86 79.0 6.69e-01 100.0% 71.4%
3601134 4076.1.1.0 ↗ a+b two layers › L9 N-domain-like › L9 N-domain-like › L9 N-domain-like 0.86 73.0 6.23e-01 97.8% 60.0%
4144346 4076.3.1.6 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › GINS_N 0.85 75.0 6.51e-01 95.6% 75.4%
5024995 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.85 77.0 7.28e-01 100.0% 92.5%
4967982 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.84 70.0 7.11e-01 91.1% 100.0%
5012 4076.3.1.3 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › SLD5_C 0.84 71.0 6.58e-01 95.6% 93.1%
1890284 4076.3.1.5 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.84 74.0 6.79e-01 100.0% 87.9%
4983058 4076.3.1.5 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.83 73.0 6.76e-01 100.0% 89.7%
4081421 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.83 73.0 7.10e-01 97.8% 98.0%
4932061 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.83 70.0 7.08e-01 93.3% 100.0%
4956454 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.83 74.0 6.93e-01 100.0% 83.6%
5010676 4076.4.1.1 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain › PriS_C 0.83 74.0 7.18e-01 100.0% 96.0%
4988095 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.83 73.0 7.08e-01 97.8% 100.0%
4025149 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.82 69.0 6.28e-01 95.6% 93.3%
4230268 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.82 69.0 6.90e-01 91.1% 100.0%
4641420 4076.4.1.1 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain › PriS_C 0.82 72.0 5.73e-01 100.0% 53.3%
4536596 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.80 69.0 6.79e-01 95.6% 95.8%
4169249 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.79 68.0 6.72e-01 95.6% 95.8%
5083883 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.79 69.0 6.99e-01 100.0% 100.0%
5009 4076.3.1.2 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › YqbF 0.76 64.0 6.29e-01 100.0% 93.9%
4048813 3529.1.1.1 ↗ beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Vault 0.71 61.0 5.81e-01 100.0% 81.8%
3600188 3529.1.1.0 ↗ beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain 0.68 55.0 5.24e-01 100.0% 78.2%
4095038 109.4.1.1360 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › CBF, NOC3p 0.67 38.0 2.10e-01 71.1% 4.2%
5061536 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.65 55.0 4.32e-01 100.0% 100.0%
3258638 4.8.1.28 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Fra10Ac1 0.60 43.0 3.28e-01 77.8% 33.3%
1030922 10.12.1.59 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Pirin_C_2 0.60 50.0 4.09e-01 100.0% 50.0%
5037790 10.34.1.0 ↗ beta sandwiches › jelly-roll › Protein CLP1 jelly-roll domain › Protein CLP1 jelly-roll domain 0.59 49.0 4.40e-01 100.0% 68.6%
5055563 10.12.1.49 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_7 0.59 50.0 3.75e-01 100.0% 40.0%
4999938 10.34.1.0 ↗ beta sandwiches › jelly-roll › Protein CLP1 jelly-roll domain › Protein CLP1 jelly-roll domain 0.59 49.0 4.27e-01 100.0% 64.0%
1180072 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.59 49.0 3.86e-01 100.0% 46.2%
4970994 10.34.1.0 ↗ beta sandwiches › jelly-roll › Protein CLP1 jelly-roll domain › Protein CLP1 jelly-roll domain 0.59 48.0 4.23e-01 100.0% 64.0%
5071462 10.34.1.0 ↗ beta sandwiches › jelly-roll › Protein CLP1 jelly-roll domain › Protein CLP1 jelly-roll domain 0.58 48.0 4.22e-01 100.0% 64.0%
1180071 10.12.1.49 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_7 0.58 48.0 3.69e-01 100.0% 42.2%
4141296 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.58 47.0 4.15e-01 100.0% 62.7%
3496452 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.56 39.0 2.74e-01 75.6% 79.4%
3623124 3346.1.1.1 ↗ a+b two layers › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › UfSP2_N 0.54 40.0 2.60e-01 82.2% 31.4%
3477856 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.53 41.0 3.23e-01 100.0% 36.8%
4089073 275.1.1.0 ↗ a+b two layers › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase 0.52 41.0 3.66e-01 93.3% 67.1%
4622883 275.1.1.0 ↗ a+b two layers › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase 0.52 39.0 3.66e-01 100.0% 66.2%