Protein Info for Shew_2421 in Shewanella loihica PV-4

Annotation: diguanylate cyclase/phosphodiesterase with PAS/PAC and GAF sensor(s) (RefSeq)

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 1100 1200 1300 1437 signal peptide" amino acids 1 to 36 (36 residues), see Phobius details transmembrane" amino acids 719 to 742 (24 residues), see Phobius details PF07494: Reg_prop" amino acids 55 to 77 (23 residues), 20.2 bits, see alignment (E = 2e-07) PF07495: Y_Y_Y" amino acids 654 to 712 (59 residues), 45.4 bits, see alignment (E = 2.8e-15) PF08447: PAS_3" amino acids 804 to 867 (64 residues), 44.8 bits, see alignment (E = 5.7e-15) TIGR00229: PAS domain S-box protein" amino acids 877 to 999 (123 residues), 51.4 bits, see alignment E=1.1e-17 PF00989: PAS" amino acids 882 to 989 (108 residues), 42.5 bits, see alignment 2.6e-14 PF13188: PAS_8" amino acids 882 to 926 (45 residues), 24.9 bits, see alignment (E = 6.6e-09) PF08448: PAS_4" amino acids 888 to 994 (107 residues), 26.5 bits, see alignment 3e-09 PF13426: PAS_9" amino acids 892 to 990 (99 residues), 48.7 bits, see alignment 3.6e-16 TIGR00254: diguanylate cyclase (GGDEF) domain" amino acids 1000 to 1158 (159 residues), 117.5 bits, see alignment E=5e-38 PF00990: GGDEF" amino acids 1004 to 1156 (153 residues), 134.6 bits, see alignment E=1.2e-42 PF00563: EAL" amino acids 1178 to 1410 (233 residues), 239.9 bits, see alignment E=1.2e-74

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

See A3QFN9 at UniProt or InterPro

Protein Sequence (1437 amino acids)

>Shew_2421 diguanylate cyclase/phosphodiesterase with PAS/PAC and GAF sensor(s) (RefSeq) (Shewanella loihica PV-4)
MHYWLIIKLIIMPKILSRLLLSLLMALTVSSYVSASEIPSNAPILKVDHYNVPEGLSQST
VTSIVEDEHGYIWIGTLNGLNRFDGTQFKQYFAEGVDGSLPSSFIRSLYIDDSSRLLVGT
DKGLVIYNDDLDNFESFENQLIKEQAIWSISEDKKSILIGTESNLIEINKSENKVQLLTN
YDFGGIKKTISLNDKIYLRNYDGEIYEYTKGRVNLVTKNSIGLLLFKNSIFTLQKYNLVN
ILTKEKVLFPSEITSISENNSTPVILTDNLITTIDNNLKVEVIGTLKTDSATTYPPLVYS
SNKGIYIATINNGITIIKHDRNLIKNYISNKNVWSIDSYNKEKLIVASDSPLIEVFDKNL
TLINSYDSKIAGPKSAIIKNNKIYIASTEGLQSIDISSREHKVLSNNRFLIVRSDKDKNR
IITGSFDGKVFFYSLDDEITTPVTIDSGNPIYDIKIKKDTTWVATQSGLFSLNSGVVSKV
VAADLVSSIFIDENTVYFTTRNSLSKYDTLTNLVTEIFKSSKPIYAIEKSGDNIIASSNA
EIFLITNDHDMYSFPSSYGSQDEYNSQAISSLDETIYIGGINGLSVLNTRKISNFLTERI
PPKVIVDTLLVFNVPEKVNGGILKKQLPKTQRISLKYSDYPFTLKFSTPGNIDKTLEYAY
QLEGLSDTWINSKGINSATYTNLSPGEYYFKVHTIDPLTKKLGITQSLSIEITPPWWLSI
QAKVVYLLITLLITGVIVKAALRRREVQRQIAKSEERLKLSLWGSGDEMWDWDIETGQIY
RSNIWGSLEFPRDGQRSGEEGEESNIHPMDQERVNTALNKHFYGETDHFEAAYRVKGKDD
QWIWILDRAKIVERDEEDKALRMTGTIKNISNFKQAEEQLRLFERAIENISEGMFILDNK
FKFVEVNEACCDLCEKSRNDFIGELFKFDLYPESYSEQIRHILQQQGSWSNEVESAKGDG
SSFLMELTVDAIYDEQGVLSHYVGVFSDISRRKQQEEELRKLTNNDLLTSLPNRSSLMVT
LGNLVKKDTHHTLMVLDLDNFKKINDSLGHQVGDELLIKVARRIESTVPYHTSIYRLGGD
EFAILVDNNPDIGSSAVIANHVVDAFSSPFELTKDRVVVGVSIGIVLYPEDDQNEQALLR
KADIAMYHAKSAGGNRYQFYSESLNRNAIRQLEVENLIREGLRDDLFEVYYQPKIDLRTS
KMAGMEALVRLNHPEHGLIPPGDFIPLAEENGLIVEIGEVVLRKACFAAQNWRRQNLFNG
RVAVNLSSQQFALPDLQQRIESILRLTQLPAANLELEITEGTVIKQPEKAIKVMMQLSKM
GVSLALDDFGTGYSSLSYLKRFPIDTLKIDKAFVDDIDKSDRDLKMVDSIITIAHNMGLS
VVGEGVEEASQLSILKALKCEEIQGFIYSKAVNETSFTELLKQESFTYTPVSQHKKA