Protein Info for Shew_3416 in Shewanella loihica PV-4

Annotation: diguanylate cyclase/phosphodiesterase with PAS/PAC 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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 857 signal peptide" amino acids 1 to 22 (22 residues), see Phobius details transmembrane" amino acids 23 to 26 (4 residues), see Phobius details amino acids 231 to 251 (21 residues), see Phobius details TIGR00229: PAS domain S-box protein" amino acids 309 to 420 (112 residues), 27.4 bits, see alignment E=3.1e-10 PF08448: PAS_4" amino acids 312 to 419 (108 residues), 35.1 bits, see alignment E=4e-12 PF00989: PAS" amino acids 312 to 415 (104 residues), 24.3 bits, see alignment E=8.1e-09 PF13426: PAS_9" amino acids 318 to 417 (100 residues), 26 bits, see alignment E=2.9e-09 TIGR00254: diguanylate cyclase (GGDEF) domain" amino acids 426 to 585 (160 residues), 96.9 bits, see alignment E=1e-31 PF00990: GGDEF" amino acids 429 to 582 (154 residues), 113.4 bits, see alignment E=2.8e-36 PF00563: EAL" amino acids 605 to 838 (234 residues), 209.9 bits, see alignment E=1.2e-65

Best Hits

KEGG orthology group: None (inferred from 100% identity to slo:Shew_3416)

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

See A3QII4 at UniProt or InterPro

Protein Sequence (857 amino acids)

>Shew_3416 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s) (RefSeq) (Shewanella loihica PV-4)
MRISKKIVVFVAGFCLPAIMAISYGLNAWYELRLSDLRQEMSQRAQQNIAHHLEEDLGQF
EMLAQLYGVPMALLPADQRQTLSATWHAMALSAHVSLYGVEDDGIRAFAEPSPETLALDL
DALWPELLNLDGVRTGFLLQGKQGFLACVIPLSDNRRLLMVRRVDNQLFEHYQAYSSLAG
LRLATTTPSLLAQTSPQRVTLEVPSLLGDHSLLLDIELTQRDSLVQSGPATLVYLIGGIS
LLLLLLGYLWLRHGVVDPLKQLLRQLSRVDPTAKTYQPIRAKGTSEFMVISEQVNSLLAR
IFQQKERSKITLEAIAEAVILTDSWAKVIYLNPQAERLLKVKAESAVGMNLDKVFRSEPE
LNQSLFAFMASGTPTPMLSKVKFTSHTPRLMERSISNLKGPNNKIIGTVIVLRDITQEEL
LKHQLRRRANFDNVTGLLNRCAFEERLQAFAEDAQTLAICYFDLEQFKLINDSCGHNAGD
AMLKMVAKAIQASLEGQGLLARLGGDEFGLALKDLGVVPLAQQVKQIINAVGKQVMEHHG
CHYHVGISAGVALARAPYINALELLKDADIACIAAKRKGSNQVHFYDDKDKELTYQRNAP
KWAVRIAQAIEHNELLLYYQPIKALGPQGKQRMEVLLRIQEPCGRILAPAQFIAAAERFK
LMTDVDKEVIRKTFLWLSLHEELWADHCLSINLSANSLGAEGMVDYIIAQLERFAIPSQC
ICFEITETSAIQNRNRAMEMLNQLKKQGFSFALDDFGTGFASYGYLRELPVNYVKIDGCF
IKSLASNAKDYAIVKSIHDVCRVMGIETVAEFVENQEIIERLKSIGINYAQGYAIGRPKS
LDQYLTAPTDNVHRLMA