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JN116824.1__AEV51961.1__X__00025

Bact-Vir

JN116824.1__AEV51961.1__X__00025

Identity

Accession:
JN116824 ↗
Kingdom:
phage

Quality

77.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Wodongavirus› Rhodococcus_phage_REQ3

TaxID: 1109714

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 medium residues 53-139
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02467.22 best Whib 39.4 9.80e-10 63.2% 76.9%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3959743 1022.2.1.0 ↗ alpha arrays › 4Fe-4S binding domain in Dna2 › 4Fe-4S protein WhiB1 › 4Fe-4S protein WhiB1 0.80 52.0 6.04e-01 95.4% 89.2%
D2 medium residues 150-204
PDB
Domain cluster: rep: MZ150789.1__QWY84652.1__SEA_FOOTLOOSE_54__00054__D99-137
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2zetC00 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.83 54.0 3.87e-01 87.3% 26.2%
8d3mA02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.72 50.0 3.23e-01 98.2% 16.7%
1fxkC00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.66 55.0 4.06e-01 89.1% 55.6%
5hwoA00 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.64 46.0 2.73e-01 76.4% 18.9%
4zohA05 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.63 54.0 3.85e-01 90.9% 52.1%
4arvA02 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.59 47.0 3.64e-01 87.3% 65.1%
4yxtA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.58 38.0 2.71e-01 80.0% 24.3%
1wimA00 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.58 41.0 3.56e-01 78.2% 47.9%
1hyuA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.58 48.0 3.30e-01 89.1% 80.2%
7zj3D01 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.57 37.0 3.33e-01 72.7% 44.4%
2xadA00 3.40.50.10320 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › LmbE-like 0.57 44.0 2.81e-01 83.6% 17.8%
2xocA01 3.30.40.140 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › 0.53 35.0 3.24e-01 70.9% 64.1%
2kkxA00 3.30.40.80 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Effector protein NleG 0.53 35.0 3.00e-01 70.9% 43.1%
ECOD (34)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3869401 376.1.3.4 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger › FYVE_2 0.77 51.0 3.73e-01 98.2% 27.1%
4961506 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.77 58.0 3.79e-01 81.8% 20.5%
3702126 376.1.1.27 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_5 0.62 44.0 3.86e-01 76.4% 50.6%
3927940 304.36.1.2 ↗ a+b two layers › Alpha-beta plaits › YajQ-like › YajQ-like › RVT_1 0.61 37.0 2.95e-01 89.1% 31.4%
3319227 1021.1.1.2 ↗ a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › RNA_hel_CTD 0.61 46.0 4.17e-01 80.0% 61.4%
3720327 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.61 42.0 3.58e-01 76.4% 43.0%
3669182 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.59 34.0 3.10e-01 70.9% 45.8%
3358136 376.1.1.27 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_5 0.59 40.0 3.65e-01 72.7% 51.2%
3343337 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.59 41.0 3.67e-01 76.4% 50.6%
3211179 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.58 40.0 3.65e-01 76.4% 49.4%
3559289 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.57 39.0 3.53e-01 74.5% 49.4%
3472338 376.1.3.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger 0.57 40.0 3.94e-01 74.5% 70.0%
3430371 376.1.1.21 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_2 0.57 40.0 3.48e-01 76.4% 45.3%
3669337 376.1.2.20 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › Cysteine-rich domain › zf-RING_11 0.57 42.0 4.02e-01 87.3% 67.1%
3498231 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.57 41.0 3.65e-01 81.8% 51.8%
3671431 376.1.1.40 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_11 0.57 39.0 4.17e-01 76.4% 88.9%
3995951 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.57 39.0 3.50e-01 74.5% 49.4%
3924159 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.57 39.0 3.44e-01 74.5% 46.7%
4022452 376.1.1.1 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-C3HC4 0.56 38.0 3.26e-01 74.5% 40.0%
3744636 376.1.1.27 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_5 0.56 39.0 3.45e-01 76.4% 46.7%
3636201 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.56 39.0 3.20e-01 76.4% 37.4%
3259913 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.55 38.0 3.57e-01 76.4% 57.3%
3928741 376.1.1.27 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_5 0.55 38.0 3.41e-01 74.5% 49.4%
3341208 376.1.1.1 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-C3HC4 0.55 37.0 3.36e-01 74.5% 47.1%
4503505 376.1.1.37 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › SLX1_C 0.55 42.0 3.51e-01 94.5% 63.3%
3466575 376.1.3.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger 0.55 42.0 4.03e-01 85.5% 100.0%
3669336 376.1.2.12 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › Cysteine-rich domain › zf-RING_2 0.55 37.0 3.29e-01 70.9% 45.9%
3938423 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.54 37.0 3.84e-01 74.5% 81.6%
3259718 376.1.1.1 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-C3HC4 0.54 40.0 3.35e-01 83.6% 73.3%
3655538 376.1.1.21 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_2 0.54 37.0 3.29e-01 70.9% 45.9%
3965485 5084.5.3.1 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Ligand-gated protein channel › TonB_dep_Rec_b-barrel 0.52 45.0 2.57e-01 100.0% 12.8%
4943171 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.52 31.0 3.31e-01 70.9% 68.9%
3901194 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.52 38.0 3.35e-01 83.6% 90.0%
3602640 2004.1.1.120 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ResIII 0.51 42.0 2.68e-01 89.1% 36.2%