Protein Info for Sama_0276 in Shewanella amazonensis SB2B

Annotation: DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein (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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 900 969 signal peptide" amino acids 1 to 27 (27 residues), see Phobius details PF12796: Ank_2" amino acids 16 to 97 (82 residues), 41.4 bits, see alignment E=3.4e-14 PF00023: Ank" amino acids 44 to 76 (33 residues), 28.3 bits, see alignment (E = 3.1e-10) TIGR02937: RNA polymerase sigma factor, sigma-70 family" amino acids 733 to 950 (218 residues), 130 bits, see alignment E=3.2e-42 PF04542: Sigma70_r2" amino acids 741 to 806 (66 residues), 81.1 bits, see alignment 7.9e-27 PF04545: Sigma70_r4" amino acids 898 to 950 (53 residues), 57.9 bits, see alignment 1.2e-19

Best Hits

KEGG orthology group: None (inferred from 100% identity to saz:Sama_0276)

Predicted SEED Role

"RNA polymerase sigma factor RpoD" in subsystem Flagellum or Macromolecular synthesis operon or Transcription factors cyanobacterial RpoD-like sigma factors or Transcription initiation, bacterial sigma factors

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 A1S281 at UniProt or InterPro

Protein Sequence (969 amino acids)

>Sama_0276 DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein (RefSeq) (Shewanella amazonensis SB2B)
MRVLNKGSKGSFSRLLKLAVMTGVESAVKAQLDNISALNAQDQNGATLLILAVQKGHENI
CRLLLQEGADPEIEDKTGKKAKNYAEENGDDRIVHLLNERSFFVPALRSQNEYHTKDERL
SKPVACPGEIYKADKSESDSEINIVTNVGDAKNDIVVTCLRSEIVGTSLTEPAGSSEESV
PSSAILPVAVNAAKPPVLNVEQSKIFGSVENISADGKNEGSTWELDGSCPALSALDDAQT
EKLELTMPLPLGKKIAEREKSLQTVIQAQSKVDDLPCLILSQQQLKNDKEELYGWELACE
DMPPEENLESKVQASAIQLQITSHIPIDSGEGWSDIAIDLPEFLDHPDLELFRKKWVFEG
FSKLFESCAHVGTLSETFLNDYVAELYTDQILKSSHAYQVSRPTDFSKVLQNDAFYEQLY
TQLAEKVFYIRQVLEVHGCVIDDHTFEGESLADSVYEDHDAASIDDAMLLLDDLLYARDE
PMGYYFASLPGKELLTREQEVDNGMRREAARLAIMEALSEVPFICELLAHLCQEALREHN
PEQSLQKVVAELNTLPSEDFVEIKRAVSLFMDEQEDGDEPDDFVDTYPYEAIVGALKTFL
NVSGESEHPGVQDTFRSIVLTEDALNILIKALYESIDKVSDIKTELVNLYTREIKLPRKT
AESVAEQKMGRELISQLKTEYPLCEDKLERHAGAINRLQAQMQNINQKTGIDLYSLQDIG
SKIKKLQRDISAARDEMITFNLRLVLSVANKYLGRGLELADLVQEGNIGLMKAVEKFDHR
KGFKFSTYATWWIRQAITRAIADQARIIRIPVHVNESLNKLISASKVLTHKFGRGPKISE
LSLILSMPETKVENLKQILVMEPVAEADHNTNGYVDWAAMSPEEEIIDDDRDTNIKDLLK
GLTDKEKKVLELRFGINAATELTLEEVGQQFDVTRERIRQIEAKSLKKLAHTSRSSHLAI
FFGKEPVAD