Protein Info for LRK55_RS15475 in Rhodanobacter denitrificans MT42

Annotation: GGDEF domain-containing protein

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 50 100 150 200 250 300 350 400 460 TIGR00229: PAS domain S-box protein" amino acids 16 to 129 (114 residues), 81.1 bits, see alignment E=7.8e-27 PF00989: PAS" amino acids 17 to 101 (85 residues), 55.2 bits, see alignment E=3e-18 PF08448: PAS_4" amino acids 24 to 125 (102 residues), 39.7 bits, see alignment E=2.3e-13 PF13426: PAS_9" amino acids 25 to 123 (99 residues), 42.2 bits, see alignment E=3.7e-14 PF08447: PAS_3" amino acids 37 to 106 (70 residues), 52.5 bits, see alignment E=2.2e-17 PF13185: GAF_2" amino acids 145 to 284 (140 residues), 49 bits, see alignment E=3.6e-16 PF01590: GAF" amino acids 146 to 283 (138 residues), 37.6 bits, see alignment E=1.4e-12 PF13492: GAF_3" amino acids 150 to 285 (136 residues), 31.7 bits, see alignment E=8e-11 TIGR00254: diguanylate cyclase (GGDEF) domain" amino acids 292 to 454 (163 residues), 154.8 bits, see alignment E=1.8e-49 PF00990: GGDEF" amino acids 296 to 452 (157 residues), 172.2 bits, see alignment E=3.4e-54

Best Hits

KEGG orthology group: None (inferred from 58% identity to pba:PSEBR_a1304)

Predicted SEED Role

"diguanylate cyclase/phosphodiesterase (GGDEF & EAL domains) with PAS/PAC sensor(s)" in subsystem Bacterial hemoglobins

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

Find the best match in UniProt

Protein Sequence (460 amino acids)

>LRK55_RS15475 GGDEF domain-containing protein (Rhodanobacter denitrificans MT42)
MNQPPSPPEPGAGLTFSSVMDLLLDAICVVDVQGRYLFVSAAFEHIFGYAPEEVIGRPMI
GLVHPDDRERTLQAADEIMAGQPKPHFQNRYVRKDGRVIHIMWSARWSEADRVRIAVARD
VTELKHAERMQAALHAISEAAHSAEDLLELFRHIHRIVGELLPANNFFVALYDADKDELS
FPYFVDEHDPPPPTQSLDSGTLSSEVIRSGQALLLTPEARMELPPRVRPIVGRDSLEWLG
VPLGGPQGVIGALVVQSYSGELRYNEQDKALLQFVSTQIAAAIERKKSATRLQYLAQHDQ
LTSLPNRGLFHDRLRTALARARRDRQQLAVLYLDLDRFKPVNDHRGHDVGDLLLREVAAR
IRHCVRESDTVGRIGGDEFVVLLNDAGHADHAVAVAAKIGAALRQPFELAGGRLQVSASI
GIALYPAHGEDARQLLRRADDAMYDAKRQGGDQARISGTP