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NC_055728.1__YP_010092208.1__KNT72_gp057__00057

Bact-Vir

NC_055728.1__YP_010092208.1__KNT72_gp057__00057

Identity

Accession:
NC_055728 ↗
Kingdom:
phage

Quality

89.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Winklervirus› Serratia_phage_X20

TaxID: 2006942

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 51-116
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF10849.13 best DUF2654 79.7 2.00e-22 89.4% 84.3%
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7c1iA01 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.79 61.0 5.18e-01 80.3% 64.0%
4ebjA02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.77 58.0 4.55e-01 78.8% 68.5%
4m7cB00 1.25.40.210 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Telomere repeat-binding factor, dimerisation domain 0.75 59.0 4.17e-01 84.8% 62.1%
2o8pA00 1.20.190.20 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › 14-3-3 domain 0.75 53.0 3.53e-01 72.7% 24.7%
4k51B00 1.25.40.860 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.74 54.0 4.04e-01 77.3% 66.0%
8fbnB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.74 52.0 3.54e-01 74.2% 41.4%
3vtxB00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.73 53.0 3.78e-01 75.8% 27.9%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.73 52.0 4.98e-01 74.2% 88.0%
7qihA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.73 52.0 4.41e-01 74.2% 49.5%
1iygA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.72 52.0 4.08e-01 75.8% 38.3%
4p3gD00 1.10.3450.40 Mainly Alpha › Orthogonal Bundle › Hyaluronidase domain-like › Signal recognition particle, SRP68 subunit, RNA-binding domain 0.72 51.0 3.59e-01 74.2% 32.3%
1tjcA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.71 51.0 4.44e-01 74.2% 52.6%
3bgeA01 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.71 58.0 5.08e-01 87.9% 100.0%
4a4aA04 1.20.120.670 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › N-acetyl-b-d-glucoasminidase 0.71 55.0 3.51e-01 81.8% 45.2%
1a17A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.70 51.0 3.77e-01 75.8% 32.1%
4xi0F00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.70 51.0 3.67e-01 75.8% 41.6%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.70 50.0 4.80e-01 74.2% 90.5%
2hs5A02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.70 51.0 3.99e-01 77.3% 51.4%
2ra1A03 1.20.58.770 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 53.0 5.41e-01 78.8% 96.8%
3axjB02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.70 57.0 5.18e-01 86.4% 95.3%
3u8vA00 1.20.120.660 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain 0.70 54.0 5.03e-01 83.3% 79.5%
6fdpA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.69 51.0 4.12e-01 77.3% 61.7%
4an8A02 1.10.132.100 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.69 45.0 3.61e-01 77.3% 36.1%
3bqoA00 1.25.40.210 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Telomere repeat-binding factor, dimerisation domain 0.69 57.0 3.98e-01 89.4% 80.7%
3qdnA02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.68 47.0 4.32e-01 71.2% 83.3%
1wkbA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.68 49.0 3.97e-01 75.8% 58.7%
2cdqA02 1.20.120.1320 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Aspartokinase, catalytic domain 0.67 51.0 4.49e-01 81.8% 99.0%
1h72C02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.67 55.0 4.23e-01 86.4% 73.3%
3umbA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.67 47.0 4.45e-01 74.2% 74.7%
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.66 50.0 4.32e-01 80.3% 84.3%
3kg2A05 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.66 44.0 3.59e-01 100.0% 36.8%
3lewA01 1.25.40.390 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.65 57.0 3.62e-01 97.0% 48.8%
2be4A02 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.64 52.0 4.54e-01 89.4% 58.4%
1iq0A03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.63 45.0 3.76e-01 75.8% 70.7%
5djsA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.63 58.0 4.43e-01 100.0% 98.6%
6z0fA02 1.25.40.680 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Type VII secretion system EssB, C-terminal-like domain 0.62 48.0 3.52e-01 81.8% 41.6%
1vkeB00 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.62 49.0 4.24e-01 86.4% 55.4%
3jckC00 1.25.40.570 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.62 54.0 3.37e-01 100.0% 33.1%
3beyD00 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.59 52.0 4.64e-01 100.0% 78.7%
1j5wA02 1.20.58.180 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Class II aaRS and biotin synthetases; domain 2 0.57 49.0 4.66e-01 93.9% 96.1%
2e2eA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.56 51.0 3.86e-01 100.0% 80.1%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3344406 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.78 57.0 3.78e-01 75.8% 22.6%
3833089 109.4.1.44 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Vps35 0.77 55.0 3.46e-01 74.2% 31.9%
4030142 109.4.1.44 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Vps35 0.77 55.0 3.05e-01 74.2% 12.8%
3737583 109.4.1.44 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Vps35 0.76 55.0 3.22e-01 75.8% 19.6%
3520286 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.76 55.0 4.25e-01 75.8% 38.5%
3928123 109.4.1.44 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Vps35 0.76 55.0 3.23e-01 75.8% 21.5%
3696922 3291.1.1.1 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Snf7 0.75 64.0 4.78e-01 90.9% 81.3%
3504528 109.4.1.1333 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Vps35, PF27614 0.75 54.0 3.21e-01 75.8% 21.5%
4214723 109.4.1.1248 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF2753 0.75 54.0 4.23e-01 75.8% 52.3%
3702456 109.4.1.44 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Vps35 0.74 54.0 3.13e-01 75.8% 19.2%
5018765 109.4.1.198 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_12 0.74 54.0 3.83e-01 75.8% 34.6%
3901620 109.7.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Cytochrome c oxidase subunit E › Cytochrome c oxidase subunit E 0.74 53.0 5.21e-01 74.2% 71.4%
3236916 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.73 54.0 4.57e-01 77.3% 49.5%
3931153 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.72 56.0 3.84e-01 81.8% 56.6%
5022725 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.72 58.0 3.85e-01 90.9% 21.4%
3702068 109.46.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Helical domain in TOPLESS related protein 2 (TPR2) › Helical domain in TOPLESS related protein 2 (TPR2) 0.72 60.0 4.42e-01 89.4% 81.2%
3643488 192.15.1.11 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › CemA 0.71 54.0 5.22e-01 81.8% 78.7%
3387127 109.4.1.206 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › YfiO 0.71 55.0 3.89e-01 81.8% 47.6%
4414222 3712.1.1.13 ↗ a+b complex topology › Mediator of RNA polymerase II transcription subunit 11 › Mediator of RNA polymerase II transcription subunit 11 › Mediator of RNA polymerase II transcription subunit 11 › CemA 0.70 52.0 5.15e-01 80.3% 80.0%
3400810 109.4.1.1357 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_2, TPR_16 0.69 56.0 3.66e-01 86.4% 42.7%
3834069 109.4.1.81 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › eIF-3c_N 0.69 55.0 3.37e-01 84.8% 16.7%
3654859 109.4.1.1333 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Vps35, PF27614 0.68 56.0 3.09e-01 86.4% 12.7%
3819432 109.4.1.1269 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, E_motif 0.67 50.0 4.28e-01 77.3% 79.0%
4016422 109.3.1.163 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank, Ank_2, Ank_4, Ank_5 0.67 60.0 3.57e-01 100.0% 51.3%
3609864 101.1.2.22 ↗ alpha arrays › HTH › HTH › winged helix domain › PCI 0.66 54.0 3.67e-01 86.4% 53.2%
1698351 109.4.1.1353 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_8, TPR_11, TPR_16 0.66 56.0 4.48e-01 90.9% 89.5%
3453247 109.59.1.7 ↗ alpha superhelices › Repetitive alpha hairpins › Intraflagellar transport protein 80 (IFT80) C-terminal domain › Intraflagellar transport protein 80 (IFT80) C-terminal domain › PPR_2 0.65 48.0 4.23e-01 77.3% 54.3%
4386662 3291.1.1.158 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Seryl_tRNA_N 0.65 48.0 4.03e-01 98.5% 45.2%
5024994 4163.1.1.0 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like 0.64 49.0 4.01e-01 100.0% 45.8%
1657777 109.4.1.202 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_16 0.64 57.0 3.75e-01 97.0% 68.0%
3727929 109.4.1.1300 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_8, TPR_16, TPR_19 0.61 54.0 3.46e-01 97.0% 46.2%
3593497 109.4.1.201 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_14,TPR_19 0.60 54.0 3.37e-01 95.5% 62.9%
3539707 109.4.1.1418 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_7, TPR_12 0.59 54.0 3.27e-01 100.0% 47.6%
3458178 109.4.1.420 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR 0.57 52.0 3.87e-01 98.5% 91.6%
3697399 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.56 43.0 3.20e-01 81.8% 35.0%
4344734 109.4.1.1457 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF27772 0.56 46.0 2.89e-01 90.9% 40.3%
1113702 109.4.1.1799 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_7, TPR_16, TPR_19 0.55 48.0 3.53e-01 97.0% 60.2%
3736053 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.54 43.0 3.80e-01 86.4% 69.5%
4012164 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 0.52 42.0 4.31e-01 87.9% 93.8%