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MG603697.1__AUG88424.1__VPR_060__00060

Bact-Vir

MG603697.1__AUG88424.1__VPR_060__00060

Identity

Accession:
MG603697 ↗
Kingdom:
phage

Quality

88.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Grimontviridae› Dalianvirus› Vibrio_phage_Vp_R1

TaxID: 2059867

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 high residues 4-46
PDB
Domain cluster: representative
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2r61A02 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.66 56.0 4.77e-01 100.0% 82.2%
2c9oB02 2.40.50.360 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RuvBL1 DNA/RNA binding domain 0.65 56.0 4.17e-01 100.0% 43.4%
1bpeA04 3.30.210.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 3 › DNA polymerase, thumb domain 0.60 43.0 3.99e-01 81.4% 61.0%
6nwmA01 2.60.120.280 Mainly Beta › Sandwich › Jelly Rolls › Regulatory protein AraC 0.59 44.0 3.31e-01 100.0% 74.2%
2ra9A02 2.30.270.10 Mainly Beta › Roll › duf1285 protein fold › duf1285 protein 0.59 41.0 3.60e-01 83.7% 45.2%
3m9qA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.58 41.0 3.60e-01 81.4% 59.7%
3m7kA00 3.30.40.220 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › 0.56 41.0 3.08e-01 90.7% 67.6%
4iupB01 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.56 41.0 3.80e-01 86.0% 66.1%
5vmzA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.54 38.0 3.96e-01 90.7% 87.2%
5ly3A01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.54 39.0 2.69e-01 88.4% 69.5%
2yvkA01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.53 38.0 2.82e-01 88.4% 27.0%
2c9wA01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.53 39.0 3.11e-01 93.0% 60.2%
1kmdA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.52 43.0 3.27e-01 100.0% 65.8%
2im9A02 2.30.260.10 Mainly Beta › Roll › putative xylanase like fold › putative xylanase like domain 0.51 36.0 2.57e-01 100.0% 23.1%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4961948 101.1.8.0 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.72 58.0 4.22e-01 90.7% 47.5%
2070149 2003.2.1.1 ↗ a/b three-layered sandwiches › Rossmann-like › Formate dehydrogenase/DMSO reductase, domains 2 and 3 › Formate dehydrogenase/DMSO reductase, domains 2 and 3 › Molybdopterin 0.70 47.0 4.08e-01 74.4% 44.3%
3279525 295.1.1.25 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › DUF397 0.68 50.0 4.48e-01 86.0% 61.8%
3164339 4.11.1.1 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase › Peptidase_S24 0.67 50.0 3.43e-01 83.7% 23.4%
3467267 4.1.1.94 ↗ beta barrels › SH3 › SH3 › SH3 › SAWADEE 0.66 49.0 4.34e-01 88.4% 55.4%
3998167 247.1.1.0 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase 0.65 48.0 3.03e-01 83.7% 15.6%
4983508 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.64 53.0 4.66e-01 100.0% 94.3%
5079728 208.1.1.1 ↗ beta duplicates or obligate multimers › Single-stranded left-handed beta-helix › Trimeric LpxA-like enzymes › Trimeric LpxA-like enzymes › Hexapep 0.63 45.0 2.94e-01 76.7% 17.4%
3964318 2.1.1.88 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › CSD2 0.62 51.0 4.36e-01 97.7% 77.3%
4258338 101.35.1.5 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH1 0.62 52.0 3.96e-01 100.0% 47.3%
3322461 4.1.1.94 ↗ beta barrels › SH3 › SH3 › SH3 › SAWADEE 0.61 47.0 4.27e-01 88.4% 70.0%
3995179 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.60 38.0 3.84e-01 97.7% 60.0%
3587925 220.1.1.242 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › EbsA 0.59 42.0 3.71e-01 86.0% 48.0%
4323337 4009.1.1.0 ↗ alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins 0.59 48.0 3.85e-01 90.7% 52.9%
3303020 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 38.0 3.62e-01 97.7% 58.0%
3970039 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.57 43.0 3.12e-01 88.4% 100.0%
3810686 4.8.1.7 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › SAWADEE 0.57 43.0 3.65e-01 88.4% 52.5%
3225702 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.57 36.0 3.68e-01 100.0% 65.0%
3834402 5.1.4.550 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Kelch_FKB95 0.56 43.0 2.69e-01 97.7% 21.4%
4980128 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 0.55 41.0 3.01e-01 90.7% 28.6%
3404925 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.54 39.0 3.84e-01 81.4% 78.0%
7406 219.1.1.40 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › AmiA-like 0.54 38.0 2.31e-01 100.0% 11.0%
3934183 214.1.1.9 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.53 40.0 3.30e-01 100.0% 68.6%
3797569 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.53 39.0 3.72e-01 100.0% 69.1%
2430288 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 0.52 39.0 2.86e-01 90.7% 27.6%
3211092 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 0.52 38.0 2.80e-01 86.0% 55.9%
4548049 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 0.52 41.0 3.04e-01 93.0% 30.0%
3701510 3651.1.1.0 ↗ 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 0.51 37.0 2.76e-01 86.0% 62.8%
4437877 101.1.1.32 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma54_DBD 0.51 37.0 2.88e-01 100.0% 87.6%
4929823 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.50 39.0 3.80e-01 88.4% 83.7%
3260369 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.50 38.0 3.81e-01 88.4% 82.2%