Protein Info for GFF2124 in Sphingobium sp. HT1-2

Annotation: L,D-transpeptidase

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 50 100 150 200 250 300 372 signal peptide" amino acids 1 to 30 (30 residues), see Phobius details PF01471: PG_binding_1" amino acids 73 to 126 (54 residues), 47.3 bits, see alignment 1.9e-16 PF03734: YkuD" amino acids 238 to 365 (128 residues), 81.9 bits, see alignment E=7.5e-27

Best Hits

KEGG orthology group: None (inferred from 74% identity to sjp:SJA_C1-13170)

Predicted SEED Role

"FIG00637194: hypothetical protein"

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 (372 amino acids)

>GFF2124 L,D-transpeptidase (Sphingobium sp. HT1-2)
MMWESIALKYRLLGLPLLCAACNVSTTDANESQPAAPTNQTPINQTQAAPDPSAAYAFQV
VEEPGGKPWQPNQLLQAQVALDRWGFSPGVIDGKDGMSFKAALRGFQEANKLPVTGDYDQ
KTAAALLEGEAKPTTWLVRIPNGFARGPFFDIPKGLNNQASLPALTYRNLLEKLAERFHT
TPEVLTGMNPPDTKVAAGATIRVPAIANQPVARIEGDERGWGETLASLGVAKDQPQADHL
VVDKSEGLLKVYGADNRLIAQFPVTTGSQHDPLPLGEWTIKGVSRNPDFHYNPDLFWDAA
SKDQKAVLKPGPNGPVGVVWIDLSKDHYGIHGTPEPQLIGRTESHGCIRLTNWDAARLAQ
MVKSGVKAKFQA