Protein Info for Psyr_1374 in Pseudomonas syringae pv. syringae B728a

Annotation: RNA polymerase, sigma 38 subunit, RpoS

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 50 100 150 200 250 300 335 TIGR02394: RNA polymerase sigma factor RpoS" amino acids 57 to 334 (278 residues), 459 bits, see alignment E=6.7e-142 PF00140: Sigma70_r1_2" amino acids 62 to 95 (34 residues), 43.9 bits, see alignment 3.7e-15 TIGR02937: RNA polymerase sigma factor, sigma-70 family" amino acids 97 to 323 (227 residues), 118.2 bits, see alignment E=2.8e-38 PF04542: Sigma70_r2" amino acids 100 to 169 (70 residues), 82.4 bits, see alignment E=3.3e-27 PF04539: Sigma70_r3" amino acids 180 to 254 (75 residues), 75.1 bits, see alignment E=8e-25 PF04545: Sigma70_r4" amino acids 268 to 321 (54 residues), 51.1 bits, see alignment 1.5e-17

Best Hits

Swiss-Prot: 87% identical to RPOS_PSEAE: RNA polymerase sigma factor RpoS (rpoS) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K03087, RNA polymerase nonessential primary-like sigma factor (inferred from 100% identity to psb:Psyr_1374)

MetaCyc: 76% identical to RNA polymerase sigma factor RpoS (Escherichia coli K-12 substr. MG1655)

Predicted SEED Role

"RNA polymerase sigma factor RpoS" in subsystem 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 Q4ZWP7 at UniProt or InterPro

Protein Sequence (335 amino acids)

>Psyr_1374 RNA polymerase, sigma 38 subunit, RpoS (Pseudomonas syringae pv. syringae B728a)
MALGNEAPEFDIDDEVLLMEAGIVLKEASNEKQPAAVSGRTKVKHSTSLKQHKYIDYTRA
LDATQLYLNEIGFSPLLSPEEEVHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGL
SLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKE
LNVYLRAARELTQKLDHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTL
LDTLTDDRPTDPCELLQDDDLSQSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLE
IGLTRERVRQIQVEGLKRLREILEKNGLSSESLFQ