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YqaJ_viral_recombinase_family_protein

Euk-Vir

Acanthamoeba_polyphaga_moumouvirus

YqaJ_viral_recombinase_family_protein__YP_007354443__Acanthamoeba_polyphaga_moumouvirus__1269028

Identity

Accession:
YP_007354443 ↗
Protein ID:
YqaJ_viral_recombinase_family_protein
Kingdom:
euk

Quality

72.4 mean pLDDT

Taxonomy

Bamfordvirae› Nucleocytoviricota› Megaviricetes› Imitervirales› Mimiviridae› Moumouvirus› Acanthamoeba_polyphaga_moumouvirus

TaxID: 1269028

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 medium residues 1-70_115-151
PDB
D2 medium residues 152-215
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF09588.17 best YqaJ 32.6 1.30e-07 76.6% 37.3%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2491448 2008.1.1.50 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › YqaJ 0.85 78.0 4.68e-01 100.0% 16.4%
3262255 2008.1.1.50 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › YqaJ 0.75 61.0 4.43e-01 90.6% 32.6%
D3 medium residues 216-322
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF09588.17 best YqaJ 77.8 1.50e-21 91.6% 62.0%
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3syyA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.90 75.0 5.98e-01 100.0% 47.9%
3sm4A00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.85 73.0 5.57e-01 100.0% 42.7%
4da2A02 3.40.1350.60 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.57 52.0 4.62e-01 100.0% 87.5%
1vsrA00 3.40.960.10 Alpha Beta › 3-Layer(aba) Sandwich › Endonuclease; Chain A › VSR Endonuclease 0.55 46.0 4.27e-01 100.0% 73.1%
5o5jC01 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.52 40.0 4.37e-01 98.1% 98.9%
1egaA02 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.52 39.0 3.98e-01 81.3% 88.7%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2491448 2008.1.1.50 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › YqaJ 0.96 93.0 5.97e-01 100.0% 26.7%
148043 2008.1.1.50 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › YqaJ 0.90 75.0 6.02e-01 100.0% 48.7%
3614372 2008.1.1.50 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › YqaJ 0.86 75.0 5.43e-01 100.0% 37.3%
424674 2008.1.1.50 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › YqaJ 0.86 73.0 5.55e-01 100.0% 41.9%
3262255 2008.1.1.50 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › YqaJ 0.79 75.0 6.19e-01 100.0% 65.1%
4306163 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.68 57.0 5.59e-01 100.0% 83.5%
3506045 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.66 56.0 4.66e-01 100.0% 53.5%
4977249 2008.1.1.16 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.64 58.0 5.36e-01 99.1% 83.7%
3382399 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.62 57.0 4.44e-01 100.0% 68.4%
None — 0.62 56.0 3.16e-01 100.0% 12.1%
3200218 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.61 55.0 4.40e-01 99.1% 53.5%
5005253 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.61 56.0 4.85e-01 98.1% 65.6%
4678216 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.61 55.0 3.70e-01 100.0% 46.9%
5043442 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.61 54.0 4.11e-01 100.0% 42.4%
3210459 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.60 55.0 4.57e-01 100.0% 59.4%
4245081 2008.1.1.20 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Uma2 0.58 51.0 4.27e-01 100.0% 56.2%
5037058 327.11.1.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) › KH_2 0.55 38.0 4.31e-01 83.2% 95.0%
5022187 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.55 49.0 4.38e-01 100.0% 71.0%
5043433 316.1.1.2 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.53 40.0 3.92e-01 82.2% 74.8%
4932807 316.1.1.2 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.52 40.0 3.56e-01 82.2% 59.4%
4955705 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.51 38.0 3.50e-01 85.0% 61.5%
4873716 315.1.1.1 ↗ a+b two layers › Tautomerase/MIF-like › Tautomerase/MIF › Tautomerase/MIF › MIF 0.51 44.0 4.32e-01 100.0% 88.7%
5029780 316.1.1.2 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.51 39.0 3.61e-01 82.2% 66.4%
D4 medium residues 334-432
PDB
Domain cluster: rep: putative_phage-type_endonuclease__YP_003986857__Acanthamoeba_polyphaga_mimivirus__212035__D340-437
D5 medium residues 455-523
PDB
Domain cluster: representative
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2y39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.64 45.0 3.88e-01 79.7% 46.4%
4hr1A00 1.20.1270.410 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.57 40.0 3.43e-01 75.4% 48.3%
5gkxA00 3.90.1640.20 Alpha Beta › Alpha-Beta Complex › inorganic pyrophosphatase (n-terminal core) › TON_0340 0.55 41.0 2.83e-01 82.6% 80.7%
4hu8A02 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.53 45.0 2.91e-01 98.6% 44.4%
2qbyB01 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.50 36.0 3.22e-01 76.8% 100.0%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2491448 2008.1.1.50 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › YqaJ 0.95 85.0 5.09e-01 97.1% 16.4%
4939150 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.52 38.0 3.78e-01 82.6% 80.0%