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NC_028974.1__YP_009215369.1__AVT63_gp66__00066

Bact-Vir

NC_028974.1__YP_009215369.1__AVT63_gp66__00066

Identity

Accession:
NC_028974 ↗
Kingdom:
phage

Quality

76.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Woodruffvirus› Streptomyces_phage_YDN12

TaxID: 1636183

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 high residues 1-54
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1t9kA01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.78 66.0 4.91e-01 96.3% 66.4%
3rkgA02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.76 66.0 4.72e-01 100.0% 32.9%
4g12A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.76 66.0 4.74e-01 96.3% 75.8%
1cxzB00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.75 54.0 4.59e-01 75.9% 50.0%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.70 61.0 5.39e-01 98.1% 70.5%
3anwA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 53.0 4.13e-01 83.3% 43.4%
4jylA02 1.10.12.10 Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › Lyase 2-enoyl-coa Hydratase, Chain A, domain 2 0.68 44.0 4.58e-01 92.6% 73.5%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 50.0 4.64e-01 81.5% 65.2%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.66 59.0 4.53e-01 96.3% 45.7%
4jvtA02 1.10.12.10 Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › Lyase 2-enoyl-coa Hydratase, Chain A, domain 2 0.66 47.0 5.19e-01 75.9% 100.0%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.66 49.0 5.07e-01 92.6% 84.3%
2mpnA00 6.10.140.1340 Special › Helix non-globular › Helix Hairpins › 0.65 51.0 4.85e-01 90.7% 76.5%
3w8hB00 1.10.12.70 Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › 0.65 48.0 4.56e-01 92.6% 66.7%
1r4aE00 1.10.220.60 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › GRIP domain 0.64 40.0 4.13e-01 75.9% 66.7%
1tj7A01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.63 47.0 3.82e-01 81.5% 41.9%
3vkgA14 6.10.140.1060 Special › Helix non-globular › Helix Hairpins › 0.62 49.0 4.33e-01 88.9% 58.7%
2rdcA00 1.10.287.800 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 0.61 54.0 4.06e-01 100.0% 60.9%
2ycdA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.61 47.0 3.63e-01 90.7% 38.5%
2yevA02 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.60 45.0 4.12e-01 83.3% 59.5%
1ij5A01 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.60 48.0 4.29e-01 88.9% 65.8%
2wiyA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.59 52.0 3.11e-01 100.0% 24.4%
2wmmA01 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.59 45.0 4.69e-01 81.5% 91.8%
1grjA01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.58 52.0 4.62e-01 96.3% 78.4%
4r16A02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.58 43.0 3.01e-01 81.5% 27.0%
1zhcA00 6.10.280.50 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 50.0 4.55e-01 100.0% 94.7%
3fxdB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 48.0 4.68e-01 90.7% 89.7%
1qgtB00 1.10.4090.10 Mainly Alpha › Orthogonal Bundle › Hepatitis B viral capsid (hbcag) fold › Viral capsid, core domain supefamily, Hepatitis B virus 0.55 46.0 3.52e-01 100.0% 51.7%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3567180 4177.1.1.61 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › PLC-beta_C 0.75 67.0 4.33e-01 100.0% 24.2%
3780651 3602.1.1.0 ↗ alpha bundles › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain 0.67 56.0 5.22e-01 88.9% 76.9%
3581757 11.12.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD,Neur_chan_memb 0.66 56.0 3.65e-01 96.3% 22.2%
2570270 1134.1.1.0 ↗ alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain 0.66 47.0 4.80e-01 79.6% 78.8%
3588172 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.65 59.0 4.24e-01 100.0% 62.0%
4089826 622.1.1.33 ↗ alpha bundles › YvfG-like › HSC20 (HSCB), C-terminal oligomerisation domain › HSC20 (HSCB), C-terminal oligomerisation domain › T3SS_needle_F 0.64 57.0 4.86e-01 98.1% 78.8%
3460130 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.60 53.0 4.63e-01 96.3% 68.8%
5028088 3877.1.1.0 ↗ alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.59 46.0 3.61e-01 100.0% 36.1%