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BML_coassembly_scaffold_50_prodigal-single.1__X__X__00206

Bact-Vir

BML_coassembly_scaffold_50_prodigal-single.1__X__X__00206

Identity

Kingdom:
phage

Quality

66.1 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 366-410
PDB
Domain cluster: representative
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1wh2A01 3.30.1490.40 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain 0.71 57.0 5.37e-01 100.0% 86.9%
2z3gB00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.68 51.0 3.81e-01 86.7% 89.0%
3fmaA00 3.30.1490.40 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain 0.67 57.0 4.82e-01 100.0% 82.7%
1iyjB03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.67 48.0 3.43e-01 80.0% 36.6%
3ijfX00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.66 49.0 3.72e-01 86.7% 90.2%
2o5hA00 1.10.3510.10 Mainly Alpha › Orthogonal Bundle › NMB0513-like › NMB0513-like 0.60 45.0 3.35e-01 84.4% 46.9%
3h2bB00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 44.0 3.06e-01 88.9% 75.0%
6zepA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.60 49.0 3.02e-01 100.0% 59.9%
4wiwA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.58 50.0 4.41e-01 100.0% 100.0%
3e59B02 3.30.60.140 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.56 37.0 3.88e-01 100.0% 81.6%
2vugA02 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.56 44.0 3.92e-01 95.6% 73.6%
3wkmB01 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.54 43.0 3.62e-01 100.0% 61.7%
5t5dA00 3.40.35.10 Alpha Beta › 3-Layer(aba) Sandwich › Fructose Permease › Phosphotransferase system, sorbose subfamily IIB component 0.54 45.0 3.23e-01 100.0% 84.7%
4navA00 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.53 39.0 2.79e-01 86.7% 76.8%
4dddA02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.53 41.0 3.05e-01 91.1% 97.1%
3eyeA00 3.40.35.10 Alpha Beta › 3-Layer(aba) Sandwich › Fructose Permease › Phosphotransferase system, sorbose subfamily IIB component 0.53 43.0 3.12e-01 100.0% 88.2%
2w42B01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 40.0 2.91e-01 95.6% 54.4%
1z6gA02 3.30.63.10 Alpha Beta › 2-Layer Sandwich › Guanylate Kinase phosphate binding domain › Guanylate Kinase phosphate binding domain 0.50 39.0 3.55e-01 84.4% 76.7%
ECOD (11)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3930342 822.1.1.2 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 0.75 62.0 5.96e-01 100.0% 87.3%
4028559 822.1.1.2 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 0.74 59.0 5.99e-01 95.6% 100.0%
1678258 2492.1.1.1 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › dCMP_cyt_deam_1 0.66 49.0 3.68e-01 86.7% 88.1%
4944478 69.1.1.0 ↗ beta complex topology › Hedgehog/intein › Hedgehog/intein › Hint 0.61 49.0 3.82e-01 100.0% 54.2%
2914 101.24.1.1 ↗ alpha arrays › HTH › NMB0513-like › NMB0513-like › DUF596 0.60 45.0 3.37e-01 84.4% 48.0%
5046840 304.128.1.0 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in periplasmic region of MacB › ferredoxin-like domain in periplasmic region of MacB 0.60 44.0 3.64e-01 82.2% 83.3%
4988787 304.128.1.0 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in periplasmic region of MacB › ferredoxin-like domain in periplasmic region of MacB 0.59 43.0 3.72e-01 82.2% 95.0%
4390215 275.1.1.0 ↗ a+b two layers › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase 0.55 42.0 3.81e-01 97.8% 76.0%
3174338 323.1.1.0 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.53 37.0 2.58e-01 75.6% 51.7%
3935843 376.1.1.27 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_5 0.53 36.0 3.22e-01 75.6% 76.0%
3978457 7537.1.1.1 ↗ a/b three-layered sandwiches › PTS IIb component › PTS IIb component › PTS IIb component › PTSIIB_sorb 0.52 42.0 3.02e-01 100.0% 84.4%
D2 medium residues 14-42_78-174_255-311
PDB
Domain cluster: representative
D3 medium residues 175-254
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7w3rB01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.52 36.0 2.41e-01 71.2% 87.8%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3897294 385.1.1.0 ↗ few secondary structure elements › Cystine-knot cytokines › Cystine-knot cytokines › Cystine-knot cytokines 0.55 31.0 3.14e-01 86.3% 53.8%
3600031 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.52 42.0 3.86e-01 93.8% 90.1%
3495008 3382.1.1.1 ↗ alpha arrays › Protein Wnt-8 › Protein Wnt-8 › Protein Wnt-8 › wnt 0.52 42.0 2.86e-01 96.2% 72.1%
10062 2007.5.1.8 ↗ a/b three-layered sandwiches › Flavodoxin-like › SGNH hydrolase › SGNH hydrolase › Lipase_GDSL_2 0.50 40.0 3.00e-01 93.8% 93.5%