Protein Info for GFF1448 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

1 100 200 300 400 500 600 700 800 900 1000 1059 transmembrane" amino acids 19 to 38 (20 residues), see Phobius details amino acids 300 to 322 (23 residues), see Phobius details PF00672: HAMP" amino acids 321 to 371 (51 residues), 30.7 bits, see alignment 1.1e-10 TIGR00229: PAS domain S-box protein" amino acids 499 to 620 (122 residues), 49 bits, see alignment E=6.6e-17 PF13188: PAS_8" amino acids 504 to 552 (49 residues), 31 bits, see alignment 6.2e-11 PF00989: PAS" amino acids 506 to 611 (106 residues), 38.5 bits, see alignment E=3.7e-13 PF08448: PAS_4" amino acids 508 to 616 (109 residues), 26.9 bits, see alignment E=1.7e-09 PF13426: PAS_9" amino acids 513 to 613 (101 residues), 44.7 bits, see alignment E=5.1e-15 TIGR00254: diguanylate cyclase (GGDEF) domain" amino acids 623 to 785 (163 residues), 144.5 bits, see alignment E=2.5e-46 PF00990: GGDEF" amino acids 625 to 782 (158 residues), 173.2 bits, see alignment E=1.3e-54 PF00563: EAL" amino acids 804 to 1038 (235 residues), 245.1 bits, see alignment E=2.2e-76

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)

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 (1059 amino acids)

>GFF1448 diguanylate cyclase/phosphodiesterase (GGDEF & EAL domains) with PAS/PAC sensor(s) (Variovorax sp. SCN45)
MVHFITRRLSRLSVGRKLLVIYLLDLSAVIFISGILINEKFIAIDFGRKEMAGAAYIDRM
RTALLATAGWHGADPAPPQALEQLEQQYGEGLQSAEISQRFRAALASAAQTGPAGLEAAK
RAALEQGRALVTRIGNQSNLILDPDLDSYYTMSLVLLRFPELLELGSDMAARLHAPGASG
LAATEARTQYFILEGRIDAIAASIKSDYAEAFAAAKGPLQARLEPSRARLLASIDAFRRA
SRSVLESSDSSDNSGSSRGLVAFDAAQQTLFAELDGAWSGAIGELDAMLTSREHGFFARM
WMHLGTALFLLLMILTAVFYVARQISLPLRRLSGVVDTVRRTGDHSLRAHWDSGDEIGLL
VLGFNDMLAQLDRQRQAQQELAASARAAEAQRDLVAAIPIPLMVTAIPTHEVLNANPSAQ
AWLGGGTRDPWALGVAPGVRSRFFQQLADRGAVDEFEVRWLGGAEPSWAVLSARRLVYQG
QDALLTAFTPINHLKLMEQRLMLWAKVFEASSEGILIINGEHRILTANRALCRLTGHDLG
DLVGEPPEQLMSDGSLHFADLWPVLDQRGTWQGEVTVRRRNGDSYPAWLVASVVRDGPER
ISHYIFTSIDVSDRKRSEARIRFLAHHDVLTELPNRSLCIERLGLALQQAQRKGQRVGVL
FIDLDRFKNINDSLGHHVGDALLRSVAARMSQAVRPGDTVSRLGGDEFVVVLNNVADGQE
ILSLVERRLISLIRQPHDIDGAEIHVSCSVGIAVYPDDAQDIDALMRHADVAMYQSKASG
RDTARFFTPEMNERAQQRLQLESSLRHAIERDELSLHYQPRIDAHSGELICVEALLRWQS
AELGQVRPAQFIPIAEESGQIVAIGAWVIEQACAQHAAWRRDGLGAIRVAINMSALQLRD
GGLLEVLRGAIALYGVSPGDLEIELTESTLMDAAEQSLVQLHALKSLGVMLSIDDFGTGY
SSLNYLNRFPIDKLKIDRSFIHKMLGDPTDMAIARAIIGLGHTLGLRVVAEGVERREEAD
TLRAARCDELQGYLISRPMPAGKLAGWIAQASRPAWCAG