Protein Info for GFF1952 in Sphingobium sp. HT1-2

Annotation: UDP-N-acetylmuramoyl-dipeptide--2,6- diaminopimelate ligase (EC 6.3.2.13)

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 50 100 150 200 250 300 350 400 450 480 TIGR01085: UDP-N-acetylmuramyl-tripeptide synthetase" amino acids 22 to 478 (457 residues), 432.8 bits, see alignment E=8.7e-134 PF01225: Mur_ligase" amino acids 24 to 94 (71 residues), 28.7 bits, see alignment E=2.1e-10 PF08245: Mur_ligase_M" amino acids 106 to 308 (203 residues), 168.3 bits, see alignment E=3.4e-53 PF02875: Mur_ligase_C" amino acids 331 to 455 (125 residues), 110.9 bits, see alignment E=1.2e-35

Best Hits

Swiss-Prot: 63% identical to MURE_ZYMMO: UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--2,6-diaminopimelate ligase (murE) from Zymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4)

KEGG orthology group: K01928, UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimelate ligase [EC: 6.3.2.13] (inferred from 89% identity to sjp:SJA_C1-27980)

Predicted SEED Role

"UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimelate ligase (EC 6.3.2.13)" in subsystem Methicillin resistance in Staphylococci or Peptidoglycan Biosynthesis (EC 6.3.2.13)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

No predicted isozymes

Use Curated BLAST to search for 6.3.2.13

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

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

Compare to protein 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

Find the best match in UniProt

Protein Sequence (480 amino acids)

>GFF1952 UDP-N-acetylmuramoyl-dipeptide--2,6- diaminopimelate ligase (EC 6.3.2.13) (Sphingobium sp. HT1-2)
MRLGSLIEELGVEVGGNTGLDTSVTGFAIDNRKVAPGTIFGAFQGLRVNGEDFIADAVKA
GAVAIVARPEAKVEGAVHIADANPRRLLAQLAARYFAPFPDVTVAVTGTNGKTSTVELAR
QLWRMLGHKSASIGTLGVTTSVDQVSTGLTTPDIVTFLANMSGLKREGITHAAFEASSHG
LDQYRTEGLPVAAGAFTNLSRDHLDYHGDMDSYFDAKMRLFDEVVGDGGAAVIWADDEWS
DKAIQRATKRGLRVLSVGVQGQALRLANRTPTQLGQTLEIEADGKIYKVNLPLIGAYQAA
NALTAAGLVIATGGDTAKVLELLGRVQPVRGRLERAVISKAGAPVYVDYAHTPDGLRAAI
EALRPHTRGKLIALFGAGGDRDAGKRPLMGKVAADLADHVIVTDDNPRSEEPSAIRAAVM
AGAPGAEEIGGRRAAIAAAIGQAGGDDIVLLAGKGHEQGQIIGDRVLPFDDVTVARECAG