Protein Info for GFF1363 in Variovorax sp. SCN45

Annotation: diguanylate cyclase/phosphodiesterase (GGDEF & EAL domains) with PAS/PAC sensor(s)

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 923 transmembrane" amino acids 18 to 40 (23 residues), see Phobius details amino acids 293 to 313 (21 residues), see Phobius details PF02743: dCache_1" amino acids 51 to 276 (226 residues), 57.3 bits, see alignment E=5.8e-19 PF17201: Cache_3-Cache_2" amino acids 159 to 291 (133 residues), 27.7 bits, see alignment E=6e-10 PF08448: PAS_4" amino acids 381 to 487 (107 residues), 37.6 bits, see alignment E=8.3e-13 amino acids 505 to 611 (107 residues), 45.4 bits, see alignment E=3e-15 amino acids 629 to 735 (107 residues), 54.3 bits, see alignment E=5.3e-18 TIGR00229: PAS domain S-box protein" amino acids 495 to 614 (120 residues), 25.4 bits, see alignment E=1.3e-09 amino acids 618 to 741 (124 residues), 45.8 bits, see alignment E=6.2e-16 PF13596: PAS_10" amino acids 626 to 732 (107 residues), 24.9 bits, see alignment E=8.6e-09 TIGR00254: diguanylate cyclase (GGDEF) domain" amino acids 744 to 907 (164 residues), 146.8 bits, see alignment E=5e-47 PF00990: GGDEF" amino acids 746 to 905 (160 residues), 148.8 bits, see alignment E=4.3e-47

Best Hits

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 (923 amino acids)

>GFF1363 diguanylate cyclase/phosphodiesterase (GGDEF & EAL domains) with PAS/PAC sensor(s) (Variovorax sp. SCN45)
MNSSGPSKLRFGLHTRLSLGVAAVVLTATFTIATCALHFVKTSLRASIAGEQLARVSAVA
DAIDQKLSSRRILLQTFGDSVVAQDFKDAELLQGFLEKHAALKQAFDNVAFIDMEGNLVA
NQSGAVPLGSVNIKDRSYFRQTVASKTGIISQPYRNRLNGLAQVAITEPVLDSAGQVRYV
ISGAINLKDRNILGALAEVKIGKTGYLFITTTDGIVIDHPRTSRILNHVQADGGASPQVL
RAIAGFEGTSEGVDEGGVPGLYAFDRTEQTNWIVGSMYPSAEAFARVDTIERAAWIGALL
LALTAGALALGVVRRQLRPLAELHRHMEVAQQSPDELEAPMQYAHDEIGDLARTFDELMK
QRRESEQSLAHSEAQVRTIADNIPAMVSHIDASMRYTFVNAHVRALHNNAPLVGRSMPEV
RGPRDFALVESHISRALAGEAVIVEKAGDAALGIGNRTFKAHYIPDIDANGVVRGVFSMT
FDITEEVTIHKALTEQEKRLRDVTDSIPALVGYFDRNQNCLFGNIRARQMAGVGDGSLVG
TTLRSAIGEGMYAQHKPYLPVMFSGKKVRFSVRAPMHGKEGFFQVNLIPDKNPRGEVVGF
YLMSFNITALKEAELRQAESELRLRAITDSMPALITYIDREEKITFANATSREWLGLDPT
QVLGRHVQDVAGREVYLSRQPMIARALAGERVEFEARTQRKGFERITQVIYVPDVRADGL
THGIFSLALDITALKVVEHKLIELARLDTLTNLPNRLAFNEYLPDAVLRGRFTGNSLALM
FLDIDHFKGINDTLGHAVGDAVLVEYARRLQGSVRGTDMVARLAGDEFVLVLENLGSQDA
VAIVAAKITERINKPPFEVDGRQIEVTTSIGIAFHRAADSFVTAEELLARADAALYSAKA
AGRNRFEFFVGLKLLPGTEAEAH