Protein Info for Shew_3428 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 1400 1484 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details transmembrane" amino acids 770 to 789 (20 residues), see Phobius details PF08447: PAS_3" amino acids 857 to 918 (62 residues), 31.5 bits, see alignment (E = 6.1e-11) TIGR00229: PAS domain S-box protein" amino acids 933 to 1052 (120 residues), 53.9 bits, see alignment E=1.9e-18 PF00989: PAS" amino acids 936 to 1042 (107 residues), 31.9 bits, see alignment 4.1e-11 PF08448: PAS_4" amino acids 940 to 1047 (108 residues), 42.3 bits, see alignment 2.9e-14 PF13426: PAS_9" amino acids 944 to 1044 (101 residues), 50.8 bits, see alignment 6.2e-17 TIGR00254: diguanylate cyclase (GGDEF) domain" amino acids 1053 to 1216 (164 residues), 135.1 bits, see alignment E=2e-43 PF00990: GGDEF" amino acids 1056 to 1212 (157 residues), 169.1 bits, see alignment E=2.4e-53 PF00563: EAL" amino acids 1233 to 1469 (237 residues), 263.1 bits, see alignment E=7.2e-82

Best Hits

KEGG orthology group: None (inferred from 52% identity to saz:Sama_0378)

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 A3QIJ6 at UniProt or InterPro

Protein Sequence (1484 amino acids)

>Shew_3428 diguanylate cyclase/phosphodiesterase with PAS/PAC and GAF sensor(s) (RefSeq) (Shewanella loihica PV-4)
MSFTQALRLLGCLLFMIGFTAPSIAGDLVQRVFSARDGLNNATVNDISFDEYGYTWLSTE
QGLYRISDTKARRIDKDANHIRLSDEYIYLTESLSKQHLLVSSYANTYLYDIVKDEFVQL
GSDKLFPEFHPSGLQAVTRQKDGSYVLLSYVGELYRLDYKAMTLTFISALPSDPDMPWFV
LSQFGDAQLIVGKSYELQLRDSLGMLRGIFPWTEEQGQIKNLFEDRAGRLWLGSSNGLYR
VYPDSLTLEKVEQIPFYVTQMAQDKLGFLWLSGREGLIKWHPDTLEIKHFSNELKLAADL
DYIYDLAVDDNDLVWVGGSGDGLAIIADDPDFVLDNFTRNAPYQISNEMIWGIFAEQNKL
WLGTDKGLIEVDRDAKKSETYLPDEMEVNDSVYTVSAFDKQRLLLGTTNGLFIYDKQARK
TMRFAEISGGRTSLENKMIYFSYKDPLITSRWWFVTATGLFYWDKGSLEPTRMQVKGVDG
TLHQIPLRSIYRAADGKLWIGGENLFGYIDSKGLFYSRIDLFADDNISVDVSYINEVDSG
VLWLGTSPKGLVEYHPKTGLTYFLTDNWQVECSSVYFIEQLPGYRVLGCANSLVRQDLTT
GGITVIEKQDGLISHELNDGAAFYEPGVGLYVGSPDGVALVDVPQMRNRLAEDGIMMESV
SVFYEDNTETKLVPEAGMLIKPGARLISFQLTSLDYLTDIPFQLQYRLRRGKASEESKYL
QLMGQSQVNVSGLKDGHYTLDILSEQNGVWSQTPYSFSFVVEDYWWNYDWFRGLLLLSLL
LVGLYFLLLRQKQIGAFRRVNKKLKESEDRLRQSLRGSDSELWEWHSESETFLLENRGGY
FPDRGDAFELKMDEFPIYADDQEKVFTAWKRLLSKQDDRLDVDYRYRRPDESWGWTRVRG
RALEFDPVSGRVKKVAGIYTDITTQRMLEDDVKLLAQAFANTSEGVLILDADERVRVSNK
AAQSILGMSADDLIDRYFAQLVHSSEDRSDEINILLEQGITWTGEHEFQCAEGLICPVWL
NLSTMKDDRGNISHYVAVFSDITERKQTEADLRRLANYDVLTGLPNRSLFAARLAKCIHR
AEQTEDKLALIFLDLDRFKNVNDSYGHSMGDALLVEAASRLQSCVSENHTLCRFGGDEFV
ILMRDMVDIDEVNHLCEALIRQIEKPFELYGREFFISTSIGVSLWPDDAKQPEVLIKNAD
QAMYHAKEEGRGNFQYFSAERNAEALYHLKLEAELRKAMDRQEFELYFQPQIDILKDDKV
VGMEALLRWHHPKEGYIRPDIFIRVAESCGLIIEIDRWVIKQACLQGAKWAEHFGDELKL
SVNVSAVHFRQPDFIQDVQQALKESGMPAKMLGLEITEGVLMKELHVAKDHLKALREIGI
EVAIDDFGTGYSSLAYLRSFDVSTLKIDRSFLIDIATNEADQAIASSIIELARNLKLKVV
AEGVETQEQLEQVFSRGCYIIQGYYFAKPMTIDEFEKYLYIKSQ