Protein Info for SO3084 in Shewanella oneidensis MR-1

Annotation: sensory box protein (NCBI ptt file)

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 1422 signal peptide" amino acids 1 to 25 (25 residues), see Phobius details transmembrane" amino acids 711 to 729 (19 residues), see Phobius details PF07494: Reg_prop" amino acids 48 to 71 (24 residues), 24.4 bits, see alignment (E = 9.1e-09) amino acids 92 to 115 (24 residues), 17.9 bits, see alignment (E = 1.2e-06) PF07495: Y_Y_Y" amino acids 638 to 699 (62 residues), 60.9 bits, see alignment (E = 4.1e-20) PF08447: PAS_3" amino acids 791 to 854 (64 residues), 45.2 bits, see alignment (E = 4.1e-15) TIGR00229: PAS domain S-box protein" amino acids 864 to 986 (123 residues), 46.3 bits, see alignment E=4.5e-16 PF13188: PAS_8" amino acids 869 to 913 (45 residues), 25.3 bits, see alignment (E = 5.1e-09) PF00989: PAS" amino acids 870 to 976 (107 residues), 43.1 bits, see alignment 1.7e-14 PF08448: PAS_4" amino acids 875 to 981 (107 residues), 32.4 bits, see alignment 4.2e-11 PF13426: PAS_9" amino acids 879 to 977 (99 residues), 46.9 bits, see alignment 1.4e-15 TIGR00254: diguanylate cyclase (GGDEF) domain" amino acids 987 to 1144 (158 residues), 116.1 bits, see alignment E=1.3e-37 PF00990: GGDEF" amino acids 991 to 1142 (152 residues), 137.2 bits, see alignment E=2e-43 PF00563: EAL" amino acids 1165 to 1397 (233 residues), 241.1 bits, see alignment E=4.8e-75

Best Hits

KEGG orthology group: None (inferred from 100% identity to son:SO_3084)

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 Q8ECQ1 at UniProt or InterPro

Protein Sequence (1422 amino acids)

>SO3084 sensory box protein (NCBI ptt file) (Shewanella oneidensis MR-1)
MPKVLLKIFIYSCLCLSTLYPSDSIAIYSKELDSSIVLNSNLFGVPQGLSQGTVTSIVQD
NDGYLWIGTFNGLNRFDGSNFKYFFADGTNSGLPSSFIRSLQIDKNGILYVGTDNGLAVY
DKNNDSFIKYGAPLDNTPIWSINTTIETLIVGTNNAIIDIHGKENHLDLSSKGIGEIKKS
IKIGDDYFLKDYSGKLFKINQESSILIKENIIDIEQKNNKSLIISTKDGLFEYDGVLINR
IDNRSFSQLAKNNNTIYGISENYIIDINNKKTIGLISAFNPDKTTVFYANNNFFTLGSVD
QGFFIIKKQNNLVKKTSLTTNSTWHLSKNSQGFLVSSEAEKITLFNNEFKKIRDYNTYTT
GYKYALLHKNQLLYGTSNGLFLDNSNSVKKLSNETISALSSNEDDSILSAGTPDGKILII
KNSEIIKTFNTERKEPIFDIETISENLFYIASQGGLRKYDNGQETLISEQLTYSIQKDRN
YLLFGTSKALMRYDITNEKIDTLFSKNKEIYSIASDTNFITVSSLGEVIIFDKNSKTSYA
LGTSNGSQYEYNSPSAIKINDFILLAGINGVSLVSPQEISDYIKSQKANKTEISKFSVFN
MSQEKNGKYLKKPIDVTKEITLKYSDYPFSFDFISPMSDESSTNYYYRMLGLSDTWIYSN
GTNSATYTNLSPGEYVFQVYTINNLSGEKSSEREVNVIITPPWWSSTQAKIFYFLITMFL
SLFIFKAILRKREIQRQIALSEERLKLSLWGSGDEMWDWDIETGNIFRSNIWGALEFPRD
GHRSGNRDEESNIHPMDQERVREALNKHFYGETDHFEAAYRVKGKDDSWIWILDRAKIVE
RDDKDNALRMTGTIKNISQFKQKEEQLRLFEKAIENISEGMFILDSEYRFVEVNEACCRI
SQRNRSDFIGNLLTFELYPESFSNQIRTMLKQQGRWASEVEANRGDNSHFHMELTIDAIY
DELGELSHYVGVFSDISRRKQQEEELRKLTNNDLLTGLPNRSNLQVTLGNLVNKEINHAL
MVLDLDNFKRINDSLGHQVGDKLLKLVSVRIKSSVPKNTNIYRLGGDEFAIVLDKTSDIL
ASAAIAGRIVDAFNTVYEIDNEQLVLGVSVGIVLYPDDEQNEQALLRKADIAMYHAKSAG
GNCYQFYSESLNEHAIKQLETENLIREGLKEDLFEVYYQPKVDLKHGHVAGMEALVRLNH
PTLGLIPPNDFIPLAEENGLIVEIGEIVLRKACFAAQKWREQGLFKGRVAVNLSSRQFAL
PDLQQRIESILRLTQLPASHLELEITEGTVIKQPEMAITVMQQLAKMGVSLALDDFGTGY
SSLSYLKRFPIHTLKIDKAFVDDIDKSDRDLKMVDSIITIAHNMGLSVVGEGVEQAAQLN
ILRALNCEEIQGYIFSKAINEAEFTLLLQEDQAKSIAINNTL