Protein Info for Rru_A2882 in Rhodospirillum rubrum S1H

Annotation: Sigma 70 (RpoD) (NCBI)

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 50 100 150 200 250 300 350 400 450 500 550 600 650 696 PF03979: Sigma70_r1_1" amino acids 28 to 96 (69 residues), 87.6 bits, see alignment E=1.4e-28 PF00140: Sigma70_r1_2" amino acids 119 to 151 (33 residues), 49.9 bits, see alignment (E = 7.9e-17) PF04546: Sigma70_ner" amino acids 161 to 430 (270 residues), 156.5 bits, see alignment E=2.8e-49 TIGR02937: RNA polymerase sigma factor, sigma-70 family" amino acids 458 to 683 (226 residues), 131.9 bits, see alignment E=1.7e-42 TIGR02393: RNA polymerase sigma factor RpoD" amino acids 458 to 694 (237 residues), 399.2 bits, see alignment E=6.2e-124 PF04542: Sigma70_r2" amino acids 462 to 532 (71 residues), 82.3 bits, see alignment E=5.2e-27 PF04539: Sigma70_r3" amino acids 541 to 617 (77 residues), 104.2 bits, see alignment E=9.6e-34 PF04545: Sigma70_r4" amino acids 630 to 683 (54 residues), 65.1 bits, see alignment 9.8e-22

Best Hits

KEGG orthology group: K03086, RNA polymerase primary sigma factor (inferred from 100% identity to rru:Rru_A2882)

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 Q2RQB6 at UniProt or InterPro

Protein Sequence (696 amino acids)

>Rru_A2882 Sigma 70 (RpoD) (NCBI) (Rhodospirillum rubrum S1H)
MATKATNTAEAVNTQEEGGDSPLLDSMNAAVKKLVNRGKDRGYITYDELNNALPPDDVSS
EQIEDTMAMLSDMGINVVEDEEEGEASAAPPAEAGEEEPGREVAATGNVSEDDIGRTDDP
VRMYLREMGSVELLSREGEIAIAKRIEAGREMMIGGICESPLTIRALLQWHDALVDGRML
LRDIIDLDATYGSGAGPDVVAEGLEDSVVPLSPLALSPARALPKEADEAEEAVTPGRDDD
SEDEDEGDDAKPADGAGDEEAAPSGEDEGDGSENNVSLAAMEQELMPRVLETFEHIATTY
GKLKKAQDQRIAALQKGEEPGAALERKYDKLKLELVGLMEDVHLNNARIEQLVEQLNALN
KGLITQEGKLLRLAERAKIRRDEFLDHYFGREMDPSWREDVAALPGKGWRDFTTRFADEI
KDIRGSIAEIAERSLLPIPEFRRIVSTVQKGEREASRAKKEMIEANLRLVISIAKKYTNR
GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI
ETINKLVRTSRQMLHEIGREPTPEELAEKLQMPLEKVRKVLKIAKEPISLETPIGDEEDS
HLGDFIEDKNAVQPLDAAINSNLRETCTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG
QQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDN