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NC_041917.1__YP_009599645.1__FDH34_gp149__00149

Bact-Vir

NC_041917.1__YP_009599645.1__FDH34_gp149__00149

Identity

Accession:
NC_041917 ↗
Kingdom:
phage

Quality

88.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Eneladusvirus› Serratia_phage_BF

TaxID: 1962671

Cluster

View cluster (4 members)

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 medium residues 1-55
PDB
Domain cluster: representative
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
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 0.63 40.0 4.22e-01 76.4% 71.4%
1gpjA03 1.10.1200.70 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Glutamyl tRNA-reductase dimerization domain 0.62 46.0 4.10e-01 83.6% 72.9%
3fxdB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 41.0 4.04e-01 72.7% 70.7%
2d7lA01 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.58 48.0 4.96e-01 90.9% 94.3%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 40.0 3.66e-01 74.5% 54.9%
2jpnA00 1.20.1280.210 Mainly Alpha › Up-down Bundle › Monooxygenase › Uncharacterised protein UvsW.1 0.57 45.0 4.10e-01 92.7% 73.4%
2crjA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.56 44.0 3.75e-01 87.3% 56.5%
2jx4A01 6.10.140.460 Special › Helix non-globular › Helix Hairpins › 0.55 39.0 4.15e-01 78.2% 89.6%
2zopA00 1.10.520.30 Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › AF1862-like domain 0.52 43.0 3.51e-01 96.4% 59.8%
1e52A00 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.52 35.0 3.57e-01 74.5% 71.4%
1x3kA01 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.52 38.0 2.96e-01 85.5% 85.0%
3mgdB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.52 40.0 2.96e-01 83.6% 69.7%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4118420 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.65 50.0 4.79e-01 98.2% 73.8%
3734404 1128.1.1.1 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.63 47.0 4.16e-01 80.0% 66.3%
4943288 304.103.1.1 ↗ a+b two layers › Alpha-beta plaits › FMN-dependent nitroreductase-like › FMN-dependent nitroreductase-like › Nitroreductase 0.63 45.0 3.00e-01 81.8% 18.8%
3893243 190.1.1.9 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_WDHD1 0.63 52.0 5.27e-01 90.9% 89.1%
3991595 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 0.61 48.0 4.13e-01 92.7% 88.4%
3385932 5052.1.1.1 ↗ alpha complex topology › Proton glutamate symport protein › Proton glutamate symport protein › Proton glutamate symport protein › SDF 0.60 43.0 2.58e-01 78.2% 83.2%
3742339 1128.1.1.3 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › UQCC2_CBP6 0.59 44.0 4.31e-01 83.6% 81.7%
3884327 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.59 46.0 3.96e-01 87.3% 78.9%
3597591 1128.1.1.0 ↗ alpha bundles › LYR protein › LYR protein › LYR protein 0.58 42.0 4.01e-01 81.8% 72.9%
3802536 9.23.1.4 ↗ beta barrels › Lipocalins/Streptavidin › Hypothetical protein BT_0869 › Hypothetical protein BT_0869 › PAP_fibrillin 0.57 48.0 3.50e-01 98.2% 90.9%
4145892 3949.1.1.2 ↗ alpha arrays › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › DUF3603 0.57 39.0 3.45e-01 74.5% 45.6%
5017266 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.55 36.0 3.33e-01 70.9% 51.2%
3615313 1128.1.1.2 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR_2 0.54 45.0 3.97e-01 92.7% 100.0%
D2 medium residues 56-159
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1f32A01 3.30.1120.50 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › Pepsin inhibitor-3 0.72 40.0 4.82e-01 79.8% 83.6%
3x29A00 1.20.140.150 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.68 41.0 3.49e-01 98.1% 38.6%
6grrB01 3.30.457.10 Alpha Beta › 2-Layer Sandwich › Copper Amine Oxidase; Chain A, domain 1 › Copper amine oxidase-like, N-terminal domain 0.58 34.0 3.85e-01 73.1% 75.9%
1wp1B01 1.20.1600.10 Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.57 48.0 3.18e-01 87.5% 34.0%
2ogqA01 3.30.1120.30 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › POLO box domain 0.53 38.0 3.60e-01 81.7% 61.1%
4eqaC00 2.40.128.650 Mainly Beta › Beta Barrel › Lipocalin › 0.52 36.0 3.23e-01 72.1% 77.3%
1iucA00 2.120.10.70 Mainly Beta › 6 Propeller › Neuraminidase › Fucose-specific lectin 0.50 39.0 2.87e-01 85.6% 92.0%
3zl8A02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.50 36.0 2.87e-01 75.0% 85.8%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3386489 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.71 51.0 4.33e-01 93.3% 46.5%
3583571 833.1.1.0 ↗ a+b duplicates or obligate multimers › Pepsin inhibitor-3 › Pepsin inhibitor-3 › Pepsin inhibitor-3 0.69 50.0 5.05e-01 93.3% 74.5%
3591979 77.2.1.1 ↗ beta meanders › open-sided beta-meander › Histone H3 K4-specific methyltransferase SET7/9-N › Histone H3 K4-specific methyltransferase SET7/9-N › MORN 0.57 44.0 3.84e-01 81.7% 56.1%
4011287 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.56 29.0 3.47e-01 77.9% 74.3%
5013227 2003.1.1.22 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › GFO_IDH_MocA 0.53 38.0 2.74e-01 76.0% 96.0%
4934604 2003.1.1.22 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › GFO_IDH_MocA 0.52 42.0 2.99e-01 86.5% 76.2%
3984944 213.2.1.0 ↗ a+b three layers › Nat/Ivy › Inhibitor of vertebrate lysozyme, Ivy › Inhibitor of vertebrate lysozyme, Ivy 0.52 32.0 3.49e-01 71.2% 75.3%
3672390 331.1.1.1 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › TBP 0.51 30.0 3.01e-01 71.2% 54.5%
4958290 2003.1.1.22 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › GFO_IDH_MocA 0.51 41.0 2.92e-01 86.5% 76.2%