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LacPavin_0818_WC40_scaffold_238879_prodigal-single.1__X__X__00418

Bact-Vir

LacPavin_0818_WC40_scaffold_238879_prodigal-single.1__X__X__00418

Identity

Kingdom:
phage

Quality

85.1 mean pLDDT

Cluster

View cluster (3 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 2-66
PDB
Domain cluster: rep: DGJ7_scaffold_2_2069_prodigal-single.1__X__X__00027__D3-82
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2x5cA01 3.30.70.3590 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 39.0 3.57e-01 80.0% 47.3%
4rjzA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.57 43.0 3.09e-01 80.0% 53.2%
4evsA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.57 35.0 2.67e-01 92.3% 23.4%
3sluA02 3.10.450.350 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.57 44.0 3.65e-01 90.8% 94.2%
2vvlG01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.56 42.0 2.81e-01 80.0% 43.4%
3pfsB00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.55 42.0 3.36e-01 81.5% 100.0%
4eygA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.55 33.0 2.52e-01 93.8% 22.6%
3aapA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 46.0 3.77e-01 100.0% 97.6%
1jb7A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 45.0 3.40e-01 98.5% 97.1%
4zpjA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.53 33.0 2.57e-01 92.3% 24.0%
3na2A00 3.40.1570.20 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › 0.52 40.0 3.22e-01 86.2% 47.1%
4ad9A01 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.52 36.0 2.57e-01 72.3% 82.8%
1xjvA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 41.0 3.29e-01 90.8% 85.2%
1st8A01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.51 44.0 2.84e-01 100.0% 94.0%
2e7zA01 2.20.25.90 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › ADC-like domains 0.51 37.0 3.87e-01 100.0% 89.5%
4bwiB01 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.51 41.0 2.98e-01 90.8% 79.2%
3fhlA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.50 39.0 2.96e-01 90.8% 67.4%
2ap1A01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.50 41.0 3.31e-01 95.4% 87.8%
4nv1E01 3.40.50.170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Formyl transferase, N-terminal domain 0.50 40.0 2.91e-01 87.7% 58.6%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4025365 220.1.1.74 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PIG-H 0.61 39.0 3.34e-01 76.9% 39.1%
3415237 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.57 39.0 2.75e-01 70.8% 36.7%
4995772 2004.1.1.107 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DnaB_C 0.56 39.0 2.55e-01 86.2% 16.8%
3861438 220.1.1.174 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Cybc1_Eros 0.55 37.0 3.06e-01 76.9% 37.5%
3685060 2484.1.1.41 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK 0.55 46.0 2.89e-01 100.0% 44.0%
4183381 2484.1.1.8 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ROK 0.53 34.0 2.98e-01 87.7% 42.0%
3702626 206.1.3.46 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › ATP-grasp_IQCH 0.53 38.0 2.68e-01 81.5% 43.5%
3656429 101.1.1.267 ↗ alpha arrays › HTH › HTH › Three-helical HTH › PF26138 0.52 39.0 2.87e-01 83.1% 74.1%
3595483 206.1.3.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.51 42.0 2.90e-01 100.0% 38.5%
D2 high residues 71-136
PDB
Domain cluster: representative
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2aw4Z00 4.10.830.30 Few Secondary Structures › Irregular › 30s Ribosomal Protein S14; Chain N › Ribosomal protein L31 0.53 41.0 4.06e-01 84.8% 84.3%
3ll3B02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.51 43.0 2.98e-01 98.5% 27.8%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3396475 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.59 51.0 4.79e-01 93.9% 86.3%
3577651 376.1.3.32 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger › RH_dom 0.55 41.0 4.12e-01 89.4% 80.0%
3197907 145.1.1.0 ↗ alpha arrays › F-box domain › F-box domain › F-box domain 0.52 37.0 2.95e-01 74.2% 75.4%
5041804 316.1.1.2 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.51 47.0 3.74e-01 100.0% 87.2%