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OP628075.1__WAB25125.1__M3_0174__00173

Bact-Vir

OP628075.1__WAB25125.1__M3_0174__00173

Identity

Accession:
OP628075 ↗
Kingdom:
phage

Quality

80.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Lysinibacillus_phage_vB_LfM_LysYB1

TaxID: 2995278

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 high residues 49-151
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3gmvX00 3.10.450.730 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › BLIP domain 0.63 39.0 3.43e-01 96.1% 41.0%
2fpnA01 3.30.2030.10 Alpha Beta › 2-Layer Sandwich › TBP-like › YwmB-like 0.58 39.0 3.58e-01 100.0% 51.4%
2cz4A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 39.0 4.05e-01 91.3% 74.7%
1o51A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 35.0 3.81e-01 94.2% 74.2%
3f8lB00 3.40.1410.10 Alpha Beta › 3-Layer(aba) Sandwich › Chorismate lyase › Chorismate lyase-like 0.56 45.0 3.87e-01 87.4% 81.4%
6kghA02 3.30.450.330 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.54 42.0 3.74e-01 99.0% 56.5%
1uv4A00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.54 42.0 3.13e-01 85.4% 41.9%
6a9tA02 3.90.230.10 Alpha Beta › Alpha-Beta Complex › Creatine Amidinohydrolase › Creatinase/methionine aminopeptidase superfamily 0.53 47.0 3.56e-01 99.0% 81.3%
2xglA00 3.10.450.300 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › YebF/Colicin-M immunity protein 0.53 39.0 4.13e-01 87.4% 89.0%
2xefA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.52 44.0 3.20e-01 95.1% 87.6%
1yvuA04 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.52 40.0 3.19e-01 83.5% 96.7%
4fwwA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 40.0 2.62e-01 82.5% 44.3%
6qp9B01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 43.0 2.83e-01 93.2% 39.0%
4o9dA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 40.0 2.75e-01 86.4% 29.9%
3pgbA02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.50 42.0 4.11e-01 94.2% 89.6%
1gpqB00 3.40.1420.10 Alpha Beta › 3-Layer(aba) Sandwich › Inhibitor of vertebrate lysozyme, Ivy › Inhibitor of vertebrate lysozyme 0.50 41.0 3.84e-01 95.1% 71.1%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3984944 213.2.1.0 ↗ a+b three layers › Nat/Ivy › Inhibitor of vertebrate lysozyme, Ivy › Inhibitor of vertebrate lysozyme, Ivy 0.62 38.0 4.14e-01 89.3% 74.1%
3947165 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.61 39.0 3.48e-01 95.1% 44.7%
3186048 5.1.2.40 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › BT_3657-like_N 0.57 46.0 3.31e-01 89.3% 48.3%
5070518 331.9.1.0 ↗ a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain 0.56 39.0 3.59e-01 99.0% 54.1%
4279384 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.56 35.0 3.96e-01 91.3% 83.3%
3904275 5.1.4.12 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Sema 0.56 44.0 2.88e-01 85.4% 47.3%
3215628 206.1.1.44 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › DUF1679 0.55 43.0 2.99e-01 84.5% 70.8%
3319171 4178.1.1.0 ↗ beta sandwiches › Putative glucosidase YicI, C-terminal domain › Putative glucosidase YicI, C-terminal domain › Putative glucosidase YicI, C-terminal domain 0.55 41.0 3.62e-01 79.6% 80.6%
4978716 331.5.1.1 ↗ a+b two layers › TBP-like › TT1751-like › TT1751-like › DUF302 0.54 48.0 4.52e-01 100.0% 79.2%
3518045 5.1.4.12 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Sema 0.54 43.0 2.84e-01 87.4% 47.5%
4368436 5.1.4.12 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Sema 0.53 42.0 3.09e-01 85.4% 76.6%
377189 814.1.1.3 ↗ a+b two layers › Chorismate lyase › Chorismate lyase › Chorismate lyase › UTRA 0.53 45.0 3.88e-01 93.2% 89.8%
5068514 283.1.1.1 ↗ a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › Creatinase/aminopeptidase › Creatinase/aminopeptidase › Peptidase_M24 0.53 48.0 3.68e-01 99.0% 86.7%
4444614 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.53 38.0 4.17e-01 95.1% 96.2%
3290450 243.1.1.26 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › SnoaL_4 0.52 43.0 3.85e-01 88.3% 83.9%
4025137 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.52 41.0 2.77e-01 85.4% 23.2%
3331918 12.3.1.38 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Rhamnogal_lyase 0.52 45.0 3.17e-01 96.1% 69.9%
3787225 4051.1.1.1 ↗ a+b two layers › a+b domain in Capz › a+b domain in Capz › a+b domain in Capz › F_actin_cap_B 0.52 47.0 3.79e-01 100.0% 74.9%
3622582 243.1.1.41 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › Coa1 0.52 39.0 3.82e-01 96.1% 72.2%
3802664 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.52 39.0 3.39e-01 79.6% 89.7%
3669098 331.3.1.43 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › PDF2_C 0.51 40.0 3.08e-01 86.4% 37.7%
3488451 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.51 43.0 2.89e-01 93.2% 26.7%
3594838 77.2.1.0 ↗ beta meanders › open-sided beta-meander › Histone H3 K4-specific methyltransferase SET7/9-N › Histone H3 K4-specific methyltransferase SET7/9-N 0.50 34.0 3.17e-01 87.4% 55.4%
3744656 5.1.5.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40 0.50 39.0 2.69e-01 86.4% 27.9%
D2 medium residues 163-238
PDB
Domain cluster: rep: MW419087.1__QQO41312.1__015DV004_96__00096__D15-72
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1urvA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.58 43.0 3.43e-01 78.9% 69.5%
3htvA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 44.0 3.50e-01 86.8% 95.2%
2xhgA01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.52 36.0 2.82e-01 73.7% 77.8%
2lfhA00 4.10.280.10 Few Secondary Structures › Irregular › MYOD Basic-Helix-Loop-Helix Domain, subunit B › Helix-loop-helix DNA-binding domain 0.50 26.0 2.78e-01 100.0% 48.5%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2630271 5077.1.1.1 ↗ extended segments › Chlorophyll a-b binding protein › Chlorophyll a-b binding protein › Chlorophyll a-b binding protein › Chloroa_b-bind 0.58 39.0 3.12e-01 71.1% 71.2%
5040221 206.1.2.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › SAICAR synthase › SAICAR_synt 0.55 47.0 3.20e-01 96.1% 91.0%
3740245 4156.1.1.4 ↗ alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › HA2_C 0.52 42.0 3.01e-01 86.8% 74.5%