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MK291445.1__AZV00419.1__pyei1_p02__00002

Bact-Vir

MK291445.1__AZV00419.1__pyei1_p02__00002

Identity

Accession:
MK291445 ↗
Kingdom:
phage

Quality

84.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Paracoccus_phage_vB_PyeM_Pyei1

TaxID: 2500566

Cluster

Singleton — not in a non-trivial cluster

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 9-57
PDB
Domain cluster: representative
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2o8bA04 1.10.1420.10 Mainly Alpha › Orthogonal Bundle › MutS, DNA mismatch repair protein; Chain A, domain 3 › 0.69 51.0 4.32e-01 79.6% 75.9%
3oxhA01 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.69 44.0 3.22e-01 71.4% 23.4%
2pt7C01 3.30.450.90 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.64 44.0 3.41e-01 71.4% 31.1%
2i4lA01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.61 46.0 2.84e-01 87.8% 26.5%
3uoxB01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.61 43.0 2.68e-01 75.5% 65.4%
3pieA02 3.30.1370.250 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.61 41.0 3.34e-01 73.5% 34.0%
2xubA01 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 0.61 42.0 3.59e-01 73.5% 62.8%
2mkyA00 3.30.70.1530 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hypothetical protein rpa1041 0.60 40.0 3.88e-01 71.4% 58.6%
3ossD00 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.60 44.0 3.19e-01 83.7% 66.2%
6hj2A00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.60 43.0 2.70e-01 77.6% 37.6%
1d5aA03 3.90.1600.10 Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain 0.59 39.0 2.82e-01 71.4% 20.7%
2wa0A01 1.10.10.1200 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › MAGE homology domain, winged helix WH1 motif 0.59 39.0 3.26e-01 71.4% 34.7%
6ks6Z01 1.10.560.10 Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain 0.58 41.0 2.62e-01 81.6% 14.1%
3jcmH04 3.30.70.870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Elongation Factor G (Translational Gtpase), domain 3 0.58 41.0 3.63e-01 77.6% 79.2%
1vyiA00 1.20.120.820 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Phosphoprotein, C-terminal domain 0.58 41.0 3.21e-01 77.6% 70.3%
2pw4A00 1.10.3300.10 Mainly Alpha › Orthogonal Bundle › Jann2411-like fold › Jann2411-like domain 0.56 47.0 3.27e-01 100.0% 31.7%
6lw5A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.56 41.0 2.55e-01 79.6% 31.8%
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 0.55 38.0 3.42e-01 73.5% 89.9%
5m1pB00 3.30.420.240 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.54 37.0 2.57e-01 73.5% 61.4%
1yt5A01 3.40.50.10330 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Probable inorganic polyphosphate/atp-NAD kinase; domain 1 0.54 41.0 3.14e-01 87.8% 73.1%
6xzqA01 3.40.91.90 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › Influenza RNA-dependent RNA polymerase subunit PA, endonuclease domain 0.54 42.0 3.03e-01 89.8% 79.6%
1hbxA01 3.40.1810.10 Alpha Beta › 3-Layer(aba) Sandwich › SRF-like › Transcription factor, MADS-box 0.53 40.0 3.65e-01 87.8% 71.8%
2fbiA00 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 0.52 33.0 2.45e-01 89.8% 22.8%
5ly3A02 3.30.420.570 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.52 39.0 2.56e-01 81.6% 71.4%
6juvB01 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 0.52 36.0 3.23e-01 73.5% 50.7%
4dsfA04 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.51 39.0 3.06e-01 85.7% 45.5%
1u0tB01 3.40.50.10330 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Probable inorganic polyphosphate/atp-NAD kinase; domain 1 0.51 37.0 2.92e-01 89.8% 71.2%
3eyyA01 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 2.98e-01 73.5% 75.6%
3ffhA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.50 36.0 2.76e-01 79.6% 43.9%
5koxA02 3.30.70.2450 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 37.0 3.14e-01 81.6% 52.3%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4586844 314.1.1.3 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_2d 0.66 46.0 2.66e-01 73.5% 9.0%
4940198 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.63 48.0 3.69e-01 85.7% 78.3%
4240628 4964.1.1.2 ↗ alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › RNA_pol 0.62 47.0 3.11e-01 85.7% 21.4%
3571824 101.1.2.601 ↗ alpha arrays › HTH › HTH › winged helix domain › TBPIP, LZ3wCH 0.61 35.0 2.23e-01 73.5% 13.0%
3997731 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.59 44.0 3.86e-01 83.7% 77.5%
3931636 327.11.2.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.59 40.0 3.74e-01 71.4% 56.7%
4933311 316.1.1.2 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.58 46.0 3.39e-01 93.9% 80.0%
4014289 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.57 39.0 2.84e-01 75.5% 25.0%
3859647 304.163.1.1 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › R1_ABCA1 0.57 38.0 3.46e-01 71.4% 48.6%
3786690 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.57 40.0 2.74e-01 75.5% 21.8%
3266669 304.120.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI 0.56 38.0 3.41e-01 71.4% 48.0%
3795771 5054.1.1.8 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans_2 0.56 41.0 2.50e-01 83.7% 11.7%
3909405 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.56 42.0 2.72e-01 81.6% 32.8%
4379552 101.1.2.32 ↗ alpha arrays › HTH › HTH › winged helix domain › Rrf2 0.55 39.0 2.77e-01 75.5% 38.0%
3724170 603.5.1.17 ↗ alpha bundles › STAT-like › FlgN-like › FlgN-like › SYF2 0.55 40.0 3.18e-01 95.9% 36.4%
3683227 2484.1.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin 0.55 38.0 2.50e-01 73.5% 89.3%
3699952 101.1.2.120 ↗ alpha arrays › HTH › HTH › winged helix domain › DDRGK 0.54 41.0 3.21e-01 89.8% 40.8%
3819120 101.1.2.120 ↗ alpha arrays › HTH › HTH › winged helix domain › DDRGK 0.53 40.0 3.31e-01 87.8% 49.5%
3687446 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 39.0 3.13e-01 79.6% 61.1%
3743565 109.4.1.313 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › UTP20_N 0.52 39.0 2.46e-01 85.7% 29.4%
3173350 7516.1.1.20 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glyco_transf_34 0.52 37.0 2.34e-01 81.6% 41.6%
3479364 304.163.1.0 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.52 40.0 3.48e-01 87.8% 83.7%
None — 0.52 40.0 3.06e-01 89.8% 38.5%
1407164 2484.1.1.3 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin,Thymosin 0.51 36.0 2.44e-01 77.6% 28.8%
4533897 101.1.2.508 ↗ alpha arrays › HTH › HTH › winged helix domain › PF25872 0.51 35.0 2.54e-01 71.4% 60.7%
5064344 7584.1.1.1 ↗ a/b three-layered sandwiches › Rossmann-like domain in Acetyl-CoA synthetase-like proteins › Rossmann-like domain in Acetyl-CoA synthetase-like proteins › Rossmann-like domain in Acetyl-CoA synthetase-like proteins › AMP-binding 0.51 39.0 3.00e-01 100.0% 31.6%
3952617 101.1.2.508 ↗ alpha arrays › HTH › HTH › winged helix domain › PF25872 0.51 35.0 2.83e-01 71.4% 91.0%
3701149 3548.1.1.0 ↗ a+b complex topology › Mediator of RNA polymerase II transcription submodule Med7N/31 › Mediator of RNA polymerase II transcription submodule Med7N/31 › Mediator of RNA polymerase II transcription submodule Med7N/31 0.51 34.0 2.94e-01 100.0% 36.8%
5026706 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 37.0 2.83e-01 81.6% 48.5%