←Back to structures

S2_018_000_R2_scaffold_9_prodigal-single.1__X__X__00045

Bact-Vir

S2_018_000_R2_scaffold_9_prodigal-single.1__X__X__00045

Identity

Kingdom:
phage

Quality

90.0 mean pLDDT

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 3-87
PDB
Domain cluster: rep: OK283618.1__UCR92177.1__LPLM1_00042__00042__D87-159
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02945.22 best Endonuclease_7 90.9 5.30e-26 94.1% 95.1%
D2 high residues 108-160
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1u3eM02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.71 60.0 5.60e-01 98.1% 89.7%
1b3qB03 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.61 36.0 3.35e-01 100.0% 45.6%
2mtzA01 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.59 37.0 3.83e-01 77.4% 68.0%
3l2pA03 3.30.470.30 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme 0.59 40.0 3.19e-01 98.1% 32.5%
1vajA02 3.30.1490.150 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Hypothetical protein ph0010; domain 2 0.58 48.0 4.36e-01 94.3% 75.7%
5c8qB02 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.58 39.0 4.11e-01 71.7% 95.7%
1mwrA03 3.30.1390.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L30; Chain: A, › Penicillin-binding protein 2a; domain 3 0.57 39.0 3.58e-01 71.7% 58.6%
2djpA00 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.56 39.0 3.51e-01 79.2% 51.9%
3hx1B00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.55 45.0 3.72e-01 96.2% 99.1%
4x9xA01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.55 40.0 3.00e-01 96.2% 28.9%
3viuA04 3.90.650.10 Alpha Beta › Alpha-Beta Complex › Phosphoribosyl-aminoimidazole Synthetase; Chain A, domain 2 › PurM-like C-terminal domain 0.54 37.0 2.67e-01 71.7% 96.0%
1x4rA01 3.30.720.50 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.54 45.0 4.06e-01 98.1% 86.1%
2dk6A01 3.30.720.50 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.54 43.0 3.72e-01 96.2% 91.5%
2mkxA00 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.53 36.0 3.69e-01 71.7% 80.4%
2wadA02 3.90.1310.10 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) 0.51 38.0 2.90e-01 100.0% 31.8%
3au4A02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.50 42.0 3.54e-01 100.0% 54.3%
ECOD (21)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3171408 101.1.14.3 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 0.81 59.0 6.13e-01 77.4% 98.0%
1030873 101.1.14.1 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › I-TevI_DNA-bd 0.81 64.0 6.00e-01 90.6% 71.4%
3058113 101.1.14.0 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases 0.79 66.0 6.69e-01 90.6% 100.0%
4384880 101.1.14.3 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 0.75 63.0 5.35e-01 92.5% 70.6%
4414927 101.1.14.3 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 0.73 64.0 5.83e-01 96.2% 92.8%
2876 101.1.14.2 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › I-HmuI_NUMOD-like 0.71 60.0 5.57e-01 98.1% 88.4%
3951529 101.1.9.24 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_66 0.66 51.0 4.25e-01 84.9% 56.8%
3244275 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.64 44.0 4.67e-01 71.7% 97.8%
4158216 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.63 40.0 3.90e-01 84.9% 58.3%
3947892 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.62 45.0 4.64e-01 77.4% 86.0%
3305689 101.15.1.9 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM1_NFP_LYK, LysM2_CERK1_LYK3_4_5 0.61 41.0 3.05e-01 71.7% 34.3%
3898121 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.61 41.0 4.14e-01 71.7% 78.2%
3985839 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.59 40.0 3.70e-01 71.7% 61.4%
3165071 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.58 39.0 3.94e-01 71.7% 78.2%
3337080 101.15.1.5 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM3_LYK4_5 0.58 39.0 3.81e-01 71.7% 73.3%
3838194 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.58 39.0 4.17e-01 71.7% 95.6%
1030936 308.2.1.0 ↗ a+b two layers › ClpS-like › Penicillin binding protein ClpS-like domain › Penicillin binding protein ClpS-like domain 0.57 38.0 3.53e-01 71.7% 57.7%
4468802 101.15.1.0 ↗ alpha arrays › HTH › LysM domain › LysM domain 0.56 38.0 3.35e-01 71.7% 54.4%
3452845 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.56 38.0 3.84e-01 73.6% 76.4%
4149459 316.1.1.0 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.55 37.0 2.79e-01 96.2% 24.5%
3260247 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.55 45.0 4.01e-01 98.1% 96.4%