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NC_048751.1__YP_009843749.1__HWC07_gp068__00068

Bact-Vir

NC_048751.1__YP_009843749.1__HWC07_gp068__00068

Identity

Accession:
NC_048751 ↗
Kingdom:
phage

Quality

86.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Lietduovirus› Pantoea_phage_vB_PagM_LIET2

TaxID: 2508071

Cluster

View cluster (10 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 high residues 9-122
PDB
Domain cluster: rep: OY757066.1__CAK1257060.1__K70PH128C1_LOCUS49__00049__D138-228
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF19905.5 best DUF6378 40.4 4.20e-10 69.3% 84.0%
CATH (21)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ca1A01 1.10.575.10 Mainly Alpha › Orthogonal Bundle › P1 Nuclease › P1 Nuclease 0.64 53.0 4.14e-01 90.4% 69.6%
7qocA01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.63 39.0 3.31e-01 71.9% 37.4%
2ehwA00 6.10.140.1220 Special › Helix non-globular › Helix Hairpins › 0.58 43.0 4.28e-01 76.3% 89.6%
3unoE00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.57 39.0 3.47e-01 70.2% 68.3%
3p9dG01 1.10.560.10 Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain 0.57 42.0 3.23e-01 76.3% 77.5%
3ckdA02 1.20.58.360 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Shigella T3SS effector IpaH defines 0.56 34.0 3.32e-01 94.7% 54.0%
3a11B01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.56 34.0 3.36e-01 76.3% 54.4%
2fjcB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.56 38.0 3.47e-01 70.2% 86.5%
1l7vA00 1.10.3470.10 Mainly Alpha › Orthogonal Bundle › ABC transporter involved in vitamin B12 uptake, BtuC › ABC transporter involved in vitamin B12 uptake, BtuC 0.56 40.0 2.94e-01 74.6% 81.7%
3rkgA02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.55 39.0 3.44e-01 72.8% 72.0%
1nfvA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.55 42.0 3.69e-01 79.8% 83.4%
5x9vA01 1.10.560.10 Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain 0.54 44.0 3.42e-01 86.0% 71.0%
1kpgD00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.54 39.0 2.85e-01 72.8% 30.7%
1s3qG00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.54 40.0 3.61e-01 78.1% 85.9%
6ks6q01 1.10.560.10 Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain 0.53 42.0 3.26e-01 88.6% 66.7%
1g2nA00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.52 37.0 2.89e-01 71.9% 79.7%
3hiuD00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.52 38.0 3.52e-01 78.1% 89.5%
2hzdA00 6.10.20.40 Special › Helix non-globular › Arc Repressor Mutant, subunit A › TEA/ATTS domain 0.52 34.0 3.82e-01 91.2% 92.7%
2yfaB01 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.52 35.0 3.54e-01 71.1% 68.9%
3a9zA02 1.10.260.50 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › 0.51 36.0 3.97e-01 97.4% 91.1%
3t69A02 3.30.420.310 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 2-keto-3-deoxy-galactonokinase, C-terminal domain 0.51 37.0 2.95e-01 84.2% 37.6%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5005987 532.2.1.0 ↗ alpha arrays › Type III secretion system domain-like › Type III secretion system domains › Type III secretion system domains 0.68 37.0 3.03e-01 72.8% 29.0%
3382499 3755.3.1.308 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF629 0.62 47.0 4.06e-01 78.9% 53.7%
3629360 4070.1.1.2 ↗ alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M50 0.61 48.0 3.90e-01 82.5% 74.8%
5052002 5050.1.1.10 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_2 0.61 43.0 3.51e-01 81.6% 38.6%
3268562 3651.1.1.1 ↗ alpha bundles › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › IF-2B 0.61 42.0 3.82e-01 88.6% 52.7%
5052609 180.1.1.1 ↗ alpha bundles › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › PAP2 0.61 40.0 3.02e-01 76.3% 27.9%
4030167 4967.1.1.0 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases 0.61 40.0 3.43e-01 71.1% 42.8%
3784936 5069.1.1.38 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › Frag1 0.60 43.0 3.28e-01 73.7% 81.5%
4995879 4070.1.1.2 ↗ alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M50 0.60 47.0 3.76e-01 82.5% 72.0%
5037317 3110.1.1.19 ↗ a/b three-layered sandwiches › STT3/PglB/AglB core domain › STT3/PglB/AglB core domain › STT3/PglB/AglB core domain › STT3 0.60 47.0 2.99e-01 82.5% 42.3%
5052312 4070.1.1.2 ↗ alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M50 0.59 47.0 3.66e-01 83.3% 68.6%
5009979 3236.1.1.1 ↗ alpha complex topology › Cation-proton antiporter › Cation-proton antiporter (CPA) › Cation-proton antiporter (CPA) › Na_H_Exchanger 0.58 45.0 3.13e-01 81.6% 86.7%
3244064 5001.1.1.69 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srd 0.58 40.0 2.91e-01 70.2% 50.7%
3514044 5001.1.1.3 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_2 0.58 42.0 3.15e-01 75.4% 72.8%
3788768 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.58 46.0 3.85e-01 85.1% 51.8%
3233878 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.58 42.0 4.11e-01 75.4% 88.8%
4943814 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.57 44.0 3.73e-01 82.5% 48.9%
4342090 140.1.1.0 ↗ alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.57 35.0 3.16e-01 75.4% 41.7%
3958664 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.56 45.0 4.04e-01 85.1% 66.5%
4873678 150.2.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Cobalamin adenosyltransferase › Cobalamin adenosyltransferase › Cob_adeno_trans 0.55 42.0 3.67e-01 78.9% 82.5%
3574876 5050.1.1.1 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Sugar_tr 0.55 44.0 4.22e-01 85.1% 79.3%
3424514 606.1.1.0 ↗ alpha complex topology › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain 0.54 39.0 3.84e-01 75.4% 70.0%
4605860 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 0.54 37.0 2.79e-01 89.5% 26.3%
4027949 604.3.1.11 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › DUF155 0.54 38.0 3.65e-01 72.8% 79.2%
4963989 177.1.1.0 ↗ alpha bundles › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease 0.53 45.0 3.94e-01 93.0% 90.9%
5026895 101.1.17.0 ↗ alpha arrays › HTH › HTH › FF domain 0.52 37.0 4.25e-01 75.4% 98.8%
3410758 3236.1.1.1 ↗ alpha complex topology › Cation-proton antiporter › Cation-proton antiporter (CPA) › Cation-proton antiporter (CPA) › Na_H_Exchanger 0.51 43.0 2.95e-01 93.0% 24.9%
4157135 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.51 36.0 3.15e-01 93.9% 45.6%
4209005 632.15.1.4 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) › HSP70 0.50 32.0 3.77e-01 78.9% 92.5%