Protein Info for GFF4074 in Xanthobacter sp. DMC5

Annotation: Nitrate import ATP-binding protein NrtD

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 50 100 150 200 256 PF00005: ABC_tran" amino acids 30 to 169 (140 residues), 105.7 bits, see alignment E=3.2e-34

Best Hits

Swiss-Prot: 42% identical to CMPD_SYNE7: Bicarbonate transport ATP-binding protein CmpD (cmpD) from Synechococcus elongatus (strain PCC 7942)

KEGG orthology group: K02049, sulfonate/nitrate/taurine transport system ATP-binding protein (inferred from 80% identity to rsp:RSP_3154)

Predicted SEED Role

"Taurine transport ATP-binding protein TauB" in subsystem Taurine Utilization

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 (256 amino acids)

>GFF4074 Nitrate import ATP-binding protein NrtD (Xanthobacter sp. DMC5)
MGSQKPLLEVSGVTLQYKTPNLLVTATYRVDFNVLEGDRFILLGPSGCGKSTLQKAVGGY
ITPTEGEMRLKGQVIRAPGPDRMMVFQEFDQLLPWKTVRQNVAFALTAARKLKGKEADER
AMHYIEKVNLTKFADTYPHMLSGGMKQRVAIARGMAMEPDILLMDEPFAALDALTRRKMQ
DELLQLWADTRFTVLFVTHSIAEAIKIGNRILLLSPHPGRVKAELNSTTDPKDAALLEQR
IQHMLFADEAKEIIDA