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NC_041899.1__YP_009597453.1__FDH16_gp133__00074

Bact-Vir

NC_041899.1__YP_009597453.1__FDH16_gp133__00074

Identity

Accession:
NC_041899 ↗
Kingdom:
phage

Quality

85.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Demerecviridae› Sugarlandvirus› Klebsiella_phage_vB_Kpn_IME260

TaxID: 1912318

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 1-39
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2zo4A02 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 0.84 47.0 4.28e-01 76.9% 40.8%
3u6uC00 3.40.1160.10 Alpha Beta › 3-Layer(aba) Sandwich › Carbamate kinase › Acetylglutamate kinase-like 0.79 45.0 2.63e-01 82.1% 7.9%
3sigA00 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.75 50.0 2.97e-01 84.6% 10.2%
3bjoA00 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 0.69 53.0 3.89e-01 84.6% 69.9%
8d3mA02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.68 59.0 3.61e-01 100.0% 53.3%
2qdjA02 6.10.140.1380 Special › Helix non-globular › Helix Hairpins › 0.68 49.0 3.87e-01 76.9% 42.9%
7sf8A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.67 58.0 3.62e-01 100.0% 41.9%
2iqcA00 1.25.40.490 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.67 50.0 3.31e-01 84.6% 19.1%
2e1mA05 1.10.405.10 Mainly Alpha › Orthogonal Bundle › Guanine Nucleotide Dissociation Inhibitor; domain 1 › Guanine Nucleotide Dissociation Inhibitor, domain 1 0.67 46.0 3.54e-01 71.8% 60.4%
1yfmA02 1.20.200.10 Mainly Alpha › Up-down Bundle › Fumarase C; Chain A, domain 2 › Fumarase/aspartase (Central domain) 0.63 55.0 3.32e-01 100.0% 44.6%
2bcfA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.62 42.0 2.55e-01 84.6% 10.7%
7r0kA02 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.61 45.0 3.05e-01 82.1% 40.4%
1s7hA02 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 47.0 3.65e-01 84.6% 87.8%
2ikdA00 3.30.1640.30 Alpha Beta › 2-Layer Sandwich › mini-chromosome maintenance (MCM) complex, chain A, domain 1 › 0.58 38.0 3.41e-01 84.6% 48.2%
2iboA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 46.0 3.56e-01 94.9% 78.7%
3nkgA00 2.60.120.790 Mainly Beta › Sandwich › Jelly Rolls › 0.53 38.0 2.51e-01 76.9% 66.5%
2hr3D02 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 0.52 40.0 3.40e-01 82.1% 51.6%
2pw4A00 1.10.3300.10 Mainly Alpha › Orthogonal Bundle › Jann2411-like fold › Jann2411-like domain 0.52 41.0 2.76e-01 94.9% 48.1%
1u5tA03 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 0.52 39.0 3.18e-01 82.1% 47.9%
6wczB02 3.30.70.2840 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Flavivirus RNA-directed RNA polymerase, thumb domain 0.51 37.0 3.31e-01 82.1% 65.0%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3798586 601.2.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Cytochromes › Cytochromes 0.77 53.0 3.31e-01 100.0% 15.3%
None — 0.76 45.0 3.45e-01 79.5% 26.2%
4968901 304.22.1.0 ↗ a+b two layers › Alpha-beta plaits › Urease metallochaperone UreE, C-terminal domain › Urease metallochaperone UreE, C-terminal domain 0.71 40.0 3.38e-01 76.9% 32.3%
3451911 11.2.1.37 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › DUF6598 0.70 57.0 3.74e-01 100.0% 80.5%
3710958 1128.1.1.0 ↗ alpha bundles › LYR protein › LYR protein › LYR protein 0.68 48.0 3.58e-01 87.2% 30.5%
3585707 4156.1.1.4 ↗ alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › HA2_C 0.68 60.0 3.65e-01 100.0% 38.3%
5065044 304.120.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI 0.67 52.0 4.09e-01 84.6% 76.2%
3314132 376.1.6.10 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › IBR domain › IBR, PF26200 0.67 53.0 3.48e-01 100.0% 22.0%
3628118 5051.1.1.6 ↗ alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Aa_trans 0.67 54.0 3.11e-01 94.9% 10.0%
3917574 223.1.1.71 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › VGCC_alpha2 0.67 57.0 3.31e-01 97.4% 67.6%
3187468 102.1.2.0 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › DNA-glycosylase 0.66 48.0 3.12e-01 76.9% 26.8%
3257636 610.2.1.0 ↗ alpha arrays › ERP29 C domain-like › Helical domain of Sec23/24 › Helical domain of Sec23/24 0.64 49.0 3.62e-01 87.2% 30.4%
5079119 604.39.1.6 ↗ alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters › QueT 0.64 53.0 3.26e-01 100.0% 15.7%
3357520 310.2.1.28 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › Myb_DNA-bind_3 0.63 47.0 3.67e-01 82.1% 58.8%
3785380 5051.1.1.6 ↗ alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Aa_trans 0.60 53.0 3.03e-01 100.0% 9.6%
4968601 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.58 48.0 3.50e-01 92.3% 41.0%
4018469 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.56 47.0 3.42e-01 92.3% 40.0%
3748179 376.1.6.1 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › IBR domain › IBR 0.56 51.0 3.86e-01 100.0% 92.2%
4992541 1.1.3.2 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB › MazE_antitoxin 0.56 42.0 3.56e-01 89.7% 49.2%
3586847 101.1.2.66 ↗ alpha arrays › HTH › HTH › winged helix domain › Mga 0.55 47.0 3.71e-01 94.9% 52.5%
5019935 101.1.2.141 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_24 0.55 42.0 3.52e-01 82.1% 64.6%
4518801 101.1.2.112 ↗ alpha arrays › HTH › HTH › winged helix domain › FtsK_gamma 0.55 43.0 3.45e-01 87.2% 44.0%
4991380 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.55 37.0 2.74e-01 79.5% 27.0%
3269936 376.1.6.1 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › IBR domain › IBR 0.52 36.0 3.19e-01 82.1% 44.3%
4031617 101.1.2.112 ↗ alpha arrays › HTH › HTH › winged helix domain › FtsK_gamma 0.50 38.0 3.07e-01 84.6% 45.6%
3566213 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.50 37.0 3.56e-01 100.0% 72.7%