Protein Info for PFLU_RS04715 in Pseudomonas fluorescens SBW25-INTG

Annotation: D-alanine--D-alanine ligase

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 318 PF01820: Dala_Dala_lig_N" amino acids 19 to 56 (38 residues), 35.1 bits, see alignment 6.1e-12 amino acids 66 to 101 (36 residues), 44.1 bits, see alignment 1e-14 TIGR01205: D-alanine--D-alanine ligase" amino acids 19 to 311 (293 residues), 348.5 bits, see alignment E=1.5e-108 PF02655: ATP-grasp_3" amino acids 110 to 281 (172 residues), 28.6 bits, see alignment E=4.9e-10 PF02786: CPSase_L_D2" amino acids 111 to 302 (192 residues), 39.3 bits, see alignment E=1.8e-13 PF07478: Dala_Dala_lig_C" amino acids 119 to 310 (192 residues), 185.6 bits, see alignment E=2.9e-58 PF02222: ATP-grasp" amino acids 121 to 280 (160 residues), 33.1 bits, see alignment E=1.5e-11 PF13535: ATP-grasp_4" amino acids 146 to 281 (136 residues), 33.8 bits, see alignment E=9.1e-12

Best Hits

Swiss-Prot: 87% identical to DDL_PSEPF: D-alanine--D-alanine ligase (ddl) from Pseudomonas fluorescens (strain Pf0-1)

KEGG orthology group: K01921, D-alanine-D-alanine ligase [EC: 6.3.2.4] (inferred from 100% identity to pfs:PFLU0949)

Predicted SEED Role

"D-alanine--D-alanine ligase (EC 6.3.2.4)" in subsystem Peptidoglycan Biosynthesis (EC 6.3.2.4)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 6.3.2.4

Use Curated BLAST to search for 6.3.2.4

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See C3KDD6 at UniProt or InterPro

Protein Sequence (318 amino acids)

>PFLU_RS04715 D-alanine--D-alanine ligase (Pseudomonas fluorescens SBW25-INTG)
MTTDYGSLFSTITPADFGRVAVLFGGKSAEREVSLKSGNAVLEALQSAGVNAFGIDVGDD
FLARLQAEKIDRAFIILHGRGGEDGSMQGLLECAGIPYTGSGILASALAMDKLRTKQVWH
SLGIPTPRHSVLCSEDDCISAAKELGLPLIVKPAHEGSSIGMAKVNSAAELIDAWKAAST
YDSQVLVEQWIQGPEYTIATLRGQVLPPIALGTPHTFYDYDAKYVASDTQYRIPCGLDAT
KEQELMDLTAKACEALGIAGWARADVMQDDQGNFWFLEVNTAPGMTDHSLVPMAARAAGL
DFQQLVLAILAASIEPRG