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NC_070884.1__YP_010661628.1__PP935_gp243__00243

Bact-Vir

NC_070884.1__YP_010661628.1__PP935_gp243__00243

Identity

Accession:
NC_070884 ↗
Kingdom:
phage

Quality

76.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pootjesviridae› Trinifflemingvirus› Rhizobium_phage_RHph_N34

TaxID: 2509586

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 medium residues 44-111
PDB
Domain cluster: representative
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2aj6A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.76 57.0 4.66e-01 79.4% 64.2%
3v9rA00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.67 48.0 4.42e-01 75.0% 90.9%
3okqA00 1.20.58.1540 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Actin interacting protein 3, C-terminal domain 0.66 37.0 2.94e-01 98.5% 30.4%
3tw6A06 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.66 39.0 4.32e-01 92.6% 74.1%
3mgdB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.64 56.0 4.28e-01 95.6% 92.8%
2xzmO02 1.10.287.10 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › S15/NS1, RNA-binding 0.63 36.0 3.62e-01 98.5% 55.7%
1a41A02 1.20.120.380 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 0.61 51.0 4.60e-01 92.6% 67.0%
4gx0A01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 47.0 4.14e-01 86.8% 56.3%
2w00A02 3.90.640.50 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › 0.60 48.0 4.72e-01 95.6% 83.6%
3kp9A01 1.20.1440.130 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › VKOR domain 0.60 48.0 3.59e-01 86.8% 91.4%
3elkA00 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 0.58 41.0 3.62e-01 75.0% 69.5%
4hteA01 1.20.58.1730 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 43.0 3.47e-01 98.5% 38.5%
2wbiB03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.58 41.0 3.12e-01 73.5% 62.0%
4rflA02 1.20.1090.10 Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain 0.57 46.0 3.43e-01 94.1% 87.9%
3tw6B03 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.56 47.0 2.89e-01 98.5% 40.2%
3bg5B07 1.10.10.2790 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.56 36.0 4.03e-01 91.2% 97.8%
1r6bX03 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.56 46.0 4.33e-01 95.6% 92.0%
2h21A02 3.90.1420.10 Alpha Beta › Alpha-Beta Complex › set domain protein methyltransferase, domain 2 › Rubisco LSMT, substrate-binding domain 0.54 45.0 3.52e-01 97.1% 81.2%
4ex8A00 3.40.1790.10 Alpha Beta › 3-Layer(aba) Sandwich › Indigoidine synthase fold › Indigoidine synthase domain 0.54 43.0 2.91e-01 92.6% 89.4%
8ctsB01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.54 43.0 3.97e-01 86.8% 67.8%
1f45B00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.53 39.0 3.16e-01 94.1% 39.8%
1e1dA02 1.20.1270.20 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.53 43.0 4.02e-01 89.7% 79.8%
1bh9B00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.52 41.0 3.82e-01 86.8% 88.8%
6xm1A02 3.90.830.10 Alpha Beta › Alpha-Beta Complex › Syntaxin Binding Protein 1; Chain A, domain 2 › Sec1/Munc18 (SM) protein, domain 3a 0.52 36.0 3.04e-01 70.6% 100.0%
3l8kA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.52 40.0 2.95e-01 89.7% 94.0%
1a5aB02 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.52 44.0 3.14e-01 97.1% 54.8%
1zbtA01 6.10.140.1950 Special › Helix non-globular › Helix Hairpins › 0.51 35.0 3.28e-01 70.6% 96.4%
5nl6A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 38.0 3.28e-01 80.9% 81.5%
3owaB04 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.50 38.0 2.96e-01 82.4% 63.1%
1u5pA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.50 36.0 3.06e-01 95.6% 47.2%
2oo2A00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.50 41.0 3.95e-01 88.2% 84.2%
1ro7A00 3.90.1480.10 Alpha Beta › Alpha-Beta Complex › sialyltransferase cstii, chain A › Alpha-2,3-sialyltransferase 0.50 38.0 2.65e-01 85.3% 23.7%
ECOD (27)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3387670 3819.1.1.0 ↗ alpha complex topology › CRISPR-associated endonuclease Cas9 alpha-helical lobe › CRISPR-associated endonuclease Cas9 alpha-helical lobe › CRISPR-associated endonuclease Cas9 alpha-helical lobe 0.75 55.0 3.38e-01 95.6% 13.6%
3481731 148.1.1.18 ↗ alpha arrays › Histone-like › Histone-related › Histone › CENP-S 0.71 52.0 4.59e-01 76.5% 86.3%
3945748 162.1.1.1 ↗ alpha bundles › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD › PRD 0.69 63.0 5.61e-01 100.0% 100.0%
4205646 181.1.1.0 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins 0.69 58.0 5.92e-01 100.0% 98.5%
3588063 162.1.1.1 ↗ alpha bundles › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD › PRD 0.68 59.0 5.12e-01 95.6% 94.2%
4986010 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.68 51.0 3.67e-01 82.4% 84.9%
3873240 378.1.1.25 ↗ few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases › MH1+NfI_DNAbd_pre-N 0.67 49.0 3.55e-01 77.9% 54.1%
3830182 142.1.1.21 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › KIX_2 0.65 54.0 5.33e-01 97.1% 97.3%
1639050 103.5.1.0 ↗ alpha arrays › RuvA-C › post-HMGL domain-like › post-HMGL domain-like 0.64 38.0 4.48e-01 92.6% 93.2%
3961831 103.4.1.7 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › DUF1290 0.63 47.0 4.13e-01 82.4% 71.4%
3976610 162.1.1.1 ↗ alpha bundles › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD › PRD 0.62 52.0 4.61e-01 94.1% 94.0%
4538846 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.60 43.0 4.07e-01 76.5% 75.3%
3651783 605.4.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein 0.60 46.0 4.11e-01 80.9% 76.6%
3819498 143.1.1.0 ↗ alpha arrays › PABP domain-like › PABC(PABP) domain › PABC(PABP) domain 0.60 46.0 4.68e-01 86.8% 100.0%
3577979 632.2.1.32 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › AAA_lid_NAV1 0.58 49.0 4.37e-01 95.6% 71.0%
3715110 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.58 45.0 4.04e-01 86.8% 87.0%
4956012 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.58 44.0 3.88e-01 83.8% 73.3%
1177434 103.5.1.1 ↗ alpha arrays › RuvA-C › post-HMGL domain-like › post-HMGL domain-like › PYC_OADA 0.57 36.0 4.09e-01 97.1% 97.8%
3245015 3831.1.1.0 ↗ alpha bundles › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 0.57 40.0 3.84e-01 75.0% 90.0%
3229885 4044.1.1.0 ↗ alpha bundles › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins 0.56 44.0 3.90e-01 85.3% 78.6%
5047712 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.54 41.0 3.98e-01 80.9% 96.0%
5060253 632.23.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Helical linker domain in nicking endonuclease N.BspD6I › Helical linker domain in nicking endonuclease N.BspD6I 0.54 42.0 4.30e-01 83.8% 96.9%
4085263 547.1.1.1 ↗ alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.54 37.0 3.30e-01 72.1% 69.0%
3373039 192.17.1.0 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.53 48.0 3.99e-01 100.0% 63.5%
3964502 5069.1.1.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes 0.53 39.0 3.45e-01 82.4% 66.4%
4535233 3754.1.1.2 ↗ alpha bundles › Bacterial cell wall synthesis membrane enzyme MraY-related › Bacterial cell wall synthesis membrane enzyme MraY-related › Bacterial cell wall synthesis membrane enzyme MraY-related › Glycos_transf_4,MraY_sig1 0.53 45.0 2.88e-01 100.0% 47.6%
3213939 3542.1.1.3 ↗ alpha arrays › Presenilin family intramembrane aspartate proteases › Presenilin family intramembrane aspartate proteases › Presenilin family intramembrane aspartate proteases › Peptidase_A22B 0.50 45.0 2.98e-01 100.0% 95.3%