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NC_042131.1__YP_009625543.1__FDJ56_gp31__00031

Bact-Vir

NC_042131.1__YP_009625543.1__FDJ56_gp31__00031

Identity

Accession:
NC_042131 ↗
Kingdom:
phage

Quality

89.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Autographivirales› Autoscriptoviridae› Phimunavirus› Pectobacterium_phage_vB_PatP_CB5

TaxID: 1983582

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 2-49
PDB
Domain cluster: representative
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3cegA00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.81 60.0 3.60e-01 79.2% 13.0%
4c0eA01 1.25.40.790 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.78 69.0 4.23e-01 100.0% 30.4%
2q0oC00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.77 59.0 4.84e-01 83.3% 46.5%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.76 58.0 4.97e-01 83.3% 57.1%
3qf7A02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.75 56.0 5.12e-01 81.2% 77.8%
3n5lA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.75 54.0 5.17e-01 79.2% 73.7%
5dn6J00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.74 53.0 4.61e-01 77.1% 51.4%
3uswA02 1.20.5.2020 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.73 56.0 5.88e-01 89.6% 95.2%
3gnlB02 1.10.287.1890 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.71 54.0 4.80e-01 83.3% 57.4%
3hjlA03 1.20.5.2020 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.71 53.0 5.67e-01 89.6% 95.1%
1y74A00 1.10.287.650 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › L27 domain 0.68 48.0 4.56e-01 87.5% 63.2%
3ajcA01 1.10.220.30 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Flagellar motor switch protein FliG, alpha-alpha superhelical domain 0.68 55.0 4.42e-01 95.8% 50.0%
1kfdA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.68 50.0 4.46e-01 81.2% 69.0%
2ebzA02 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.67 58.0 4.92e-01 100.0% 79.0%
1b48A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.66 52.0 4.27e-01 100.0% 69.7%
1bgcA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.66 49.0 3.49e-01 83.3% 53.2%
4hteA03 1.10.167.30 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › 0.66 55.0 4.75e-01 97.9% 58.7%
1vgpA02 1.10.230.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450-Terp; domain 2 › Cytochrome P450-Terp, domain 2 0.66 46.0 3.69e-01 77.1% 36.5%
4g1tA02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.64 51.0 4.83e-01 93.8% 75.4%
1wpbG01 1.10.287.680 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.64 44.0 4.37e-01 77.1% 68.5%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.63 46.0 4.36e-01 81.2% 85.2%
1gwiA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.62 51.0 3.07e-01 100.0% 19.7%
2gsvA00 6.10.140.40 Special › Helix non-globular › Helix Hairpins › 0.62 48.0 4.47e-01 93.8% 100.0%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.62 44.0 3.81e-01 79.2% 47.1%
1irxA05 1.10.10.350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.62 53.0 4.35e-01 100.0% 71.0%
2kw6A00 6.10.140.1300 Special › Helix non-globular › Helix Hairpins › 0.61 45.0 4.19e-01 83.3% 61.5%
3vurA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.61 49.0 3.88e-01 97.9% 68.1%
4hn9A02 1.20.58.2180 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 40.0 3.72e-01 77.1% 57.4%
2ekgB01 6.10.250.3270 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.57 41.0 3.96e-01 77.1% 82.1%
7vw6B01 1.10.10.1590 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › NADH-quinone oxidoreductase subunit E 0.57 44.0 4.12e-01 95.8% 73.1%
1bxiA00 1.10.1200.20 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Colicin E immunity protein 0.56 44.0 3.91e-01 97.9% 66.3%
1j09A04 1.10.8.70 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Glutamate-tRNA synthetase, class I, anticodon-binding domain 1 0.55 36.0 3.67e-01 75.0% 68.8%
7z7vE01 1.10.10.1590 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › NADH-quinone oxidoreductase subunit E 0.51 39.0 3.78e-01 97.9% 78.3%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3419709 109.4.1.1275 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, PPR_3, PPR_long, TPR_24 0.85 75.0 4.13e-01 100.0% 7.8%
3483552 176.1.1.0 ↗ alpha arrays › Annexin › Annexin › Annexin 0.82 71.0 6.08e-01 95.8% 73.3%
4162588 109.4.1.1276 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › FAT, HEAT_ATR 0.81 70.0 4.59e-01 100.0% 24.4%
3543713 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.80 59.0 4.78e-01 79.2% 42.2%
3385727 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.78 57.0 3.54e-01 79.2% 14.8%
4453815 192.12.1.1 ↗ alpha bundles › Long alpha-hairpin › Transcriptional repressor TraM › Transcriptional repressor TraM › Prok-TraM 0.78 60.0 4.76e-01 83.3% 42.1%
3890044 3922.1.1.0 ↗ alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.77 56.0 5.05e-01 79.2% 58.8%
4660205 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.77 56.0 4.09e-01 79.2% 28.1%
3473495 176.1.1.1 ↗ alpha arrays › Annexin › Annexin › Annexin › Annexin 0.77 67.0 5.60e-01 100.0% 67.1%
4026538 3826.1.1.0 ↗ alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.77 56.0 4.87e-01 79.2% 53.3%
4009690 7523.1.1.25 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Phosphonate-bd 0.76 56.0 3.71e-01 81.2% 21.0%
3626857 109.4.1.869 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › INT1_R3 0.75 67.0 4.54e-01 100.0% 34.1%
3716018 3877.1.1.1 ↗ alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC › 60KD_IMP 0.75 55.0 3.51e-01 79.2% 16.5%
3592341 3877.1.1.0 ↗ alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.75 56.0 3.59e-01 81.2% 17.1%
3451778 376.1.1.8 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › U-box 0.75 55.0 3.98e-01 85.4% 28.1%
3733478 2004.1.1.30 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.75 64.0 4.02e-01 97.9% 90.2%
3591950 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.75 54.0 3.94e-01 79.2% 28.1%
3917203 2003.1.5.14 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_3 0.74 54.0 3.40e-01 81.2% 14.4%
3612019 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.73 52.0 4.36e-01 79.2% 44.4%
4440511 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.73 53.0 5.14e-01 79.2% 72.7%
4012120 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.73 61.0 4.03e-01 100.0% 22.7%
4039238 192.6.1.1 ↗ alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain › ATP-synt_DE 0.73 55.0 5.25e-01 83.3% 70.9%
3940958 5057.1.1.1 ↗ alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neur_chan_memb 0.72 60.0 4.54e-01 100.0% 56.9%
5070237 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.72 61.0 4.95e-01 95.8% 84.4%
3660077 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.71 60.0 4.62e-01 100.0% 92.5%
5047356 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.71 53.0 4.88e-01 83.3% 61.5%
3220072 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.71 58.0 4.55e-01 100.0% 74.8%
3876519 101.1.5.3 ↗ alpha arrays › HTH › HTH › Anti-sigma factor AsiA › PF27581 0.70 56.0 4.80e-01 97.9% 54.1%
5078792 3684.1.1.0 ↗ alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.69 58.0 4.59e-01 100.0% 65.5%
4940281 192.7.1.0 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.67 49.0 4.52e-01 81.2% 63.1%
3994520 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 0.67 47.0 2.99e-01 79.2% 13.6%
3885709 192.13.1.0 ↗ alpha bundles › Long alpha-hairpin › ISY1 N-terminal domain-like › ISY1 N-terminal domain-like 0.66 49.0 4.35e-01 83.3% 53.3%
4996122 518.1.1.0 ↗ alpha arrays › Chemotaxis receptor methyltransferase CheR, N-terminal domain › Chemotaxis receptor methyltransferase CheR, N-terminal domain › Chemotaxis receptor methyltransferase CheR, N-terminal domain 0.66 49.0 3.96e-01 81.2% 41.5%
4258578 604.14.1.1 ↗ alpha bundles › Spectrin repeat-like › PPK N-terminal domain-like › PPK N-terminal domain-like › PP_kinase_N 0.66 53.0 4.33e-01 100.0% 81.9%
3243059 564.1.1.10 ↗ alpha arrays › N-terminal, cytoplasmic domain of anti-sigma factors › N-terminal, cytoplasmic domain of anti-sigma factors › N-terminal, cytoplasmic domain of anti-sigma factors › ANIS5_cation-bd 0.65 54.0 4.81e-01 100.0% 72.0%
3372352 101.1.1.69 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_7 0.65 51.0 4.55e-01 87.5% 78.6%
3936825 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.65 51.0 3.36e-01 100.0% 24.9%
3935426 109.4.1.791 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_17 0.65 53.0 4.41e-01 100.0% 63.2%
3220357 632.2.1.21 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › ANIS5_cation-bd 0.64 52.0 4.81e-01 100.0% 71.4%
3225129 3065.1.1.1 ↗ alpha bundles › Fatty acid- and retinoid-binding proteins › Fatty acid- and retinoid-binding proteins › Fatty acid- and retinoid-binding proteins › ANIS5_cation-bd 0.64 51.0 4.06e-01 97.9% 42.6%
3417475 2004.1.1.87 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.63 53.0 3.13e-01 97.9% 11.3%