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NC_028820.1__YP_009200469.1__AVV33_gp187__00208

Bact-Vir

NC_028820.1__YP_009200469.1__AVV33_gp187__00208

Identity

Accession:
NC_028820 ↗
Kingdom:
phage

Quality

87.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Tegunavirus› Yersinia_phage_vB_YenM_TG1

TaxID: 1589265

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 high residues 37-91
PDB
Domain cluster: rep: MZ326861.1__QYW02291.1__CPT_Philippe_098__00092__D106-156
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4gw9A02 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.61 39.0 3.37e-01 92.7% 39.1%
3rd4B00 2.40.50.660 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.59 46.0 4.15e-01 89.1% 97.6%
1gd5A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.58 44.0 3.41e-01 100.0% 35.4%
3deeA02 3.90.930.50 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.57 43.0 3.50e-01 100.0% 41.2%
2zkmX01 2.30.29.240 Mainly Beta › Roll › PH-domain like › 0.55 45.0 3.21e-01 100.0% 32.0%
2d42A02 3.10.450.380 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 44.0 4.24e-01 100.0% 78.5%
3sreA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.55 42.0 2.73e-01 92.7% 43.2%
4ht4A00 3.30.930.30 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › 0.55 43.0 3.00e-01 89.1% 47.9%
2jhnA01 3.30.310.20 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › DNA-3-methyladenine glycosylase AlkA, N-terminal domain 0.54 34.0 2.77e-01 85.5% 29.2%
3hjgA00 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.54 40.0 2.93e-01 89.1% 99.0%
6htnA01 2.120.10.70 Mainly Beta › 6 Propeller › Neuraminidase › Fucose-specific lectin 0.54 40.0 3.17e-01 85.5% 91.2%
4f3nA00 3.40.50.12710 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 43.0 2.72e-01 100.0% 33.2%
2y1sA00 2.30.60.10 Mainly Beta › Roll › HIV-inactivating Protein, Cyanovirin-n › Cyanovirin-N 0.53 38.0 3.22e-01 81.8% 70.4%
3kztA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 43.0 3.29e-01 92.7% 40.9%
2iw3A05 2.40.50.990 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.53 44.0 3.59e-01 100.0% 48.6%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3731201 316.1.1.10 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Nrap 0.69 45.0 2.92e-01 89.1% 14.5%
3589805 243.8.1.0 ↗ a+b two layers › Cystatin-like › Uracil-DNA glycosylase inhibitor protein › Uracil-DNA glycosylase inhibitor protein 0.65 53.0 4.51e-01 94.5% 78.9%
3585306 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.64 52.0 4.92e-01 100.0% 77.1%
3210730 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.61 38.0 4.27e-01 89.1% 100.0%
4826815 10.1.1.14 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › CoV_S1 0.60 48.0 3.57e-01 98.2% 43.1%
3781935 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.60 47.0 3.68e-01 100.0% 39.2%
3507003 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 45.0 4.17e-01 92.7% 64.0%
4004698 2.1.1.135 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF3592 0.59 44.0 4.02e-01 81.8% 100.0%
3240833 207.1.1.52 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FBA_2 0.59 46.0 2.98e-01 92.7% 17.2%
3483555 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.59 48.0 3.30e-01 98.2% 31.3%
3987807 4020.1.1.1 ↗ a+b two layers › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes › Aminotran_4 0.59 45.0 4.18e-01 89.1% 100.0%
3351761 377.1.2.1 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › PARP-type zinc finger › zf-PARP 0.59 48.0 4.10e-01 94.5% 54.7%
70842 814.1.1.3 ↗ a+b two layers › Chorismate lyase › Chorismate lyase › Chorismate lyase › UTRA 0.58 48.0 4.74e-01 98.2% 91.4%
4951189 802.1.1.0 ↗ a+b two layers › Hypothetical protein TM0160 › Hypothetical protein TM0160 › Hypothetical protein TM0160 0.58 40.0 4.14e-01 100.0% 80.0%
3752446 330.1.1.23 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › PF26535 0.58 50.0 3.78e-01 100.0% 42.1%
3396324 295.1.1.4 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › COMM_domain 0.56 45.0 4.29e-01 100.0% 75.4%
3575222 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.56 36.0 3.55e-01 87.3% 60.0%
4929793 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 48.0 3.58e-01 98.2% 89.0%
3241663 4.1.1.25 ↗ beta barrels › SH3 › SH3 › SH3 › PAZ 0.55 47.0 3.79e-01 100.0% 61.7%
3371527 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.55 44.0 3.53e-01 96.4% 43.5%
3235657 3567.1.1.0 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.54 39.0 4.19e-01 87.3% 97.8%
3581172 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.54 44.0 2.86e-01 96.4% 20.4%
4929364 896.1.1.0 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related 0.53 40.0 3.87e-01 100.0% 73.8%
3411831 922.1.1.40 ↗ few secondary structure elements › TSP-1 type 1 repeat › TSP-1 type 1 repeat › TSP-1 type 1 repeat › TSP_1, TSP1_ADAMTS 0.52 40.0 3.14e-01 87.3% 38.4%
3987365 896.1.1.4 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › DDE_Tnp_IS66 0.51 44.0 3.95e-01 100.0% 67.5%
4018119 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.51 45.0 2.71e-01 100.0% 14.8%
3466381 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.50 43.0 3.52e-01 100.0% 50.0%
3244285 822.1.1.1 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF 0.50 42.0 3.84e-01 96.4% 81.3%
D2 high residues 97-206
PDB
Domain cluster: rep: OR088901.1__WJZ27857.1__MOMMJLID_CDS0049__00049__D77-184
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02026.22 best RyR 40.1 5.00e-10 67.3% 52.8%