Protein Info for ECD_02937 in Escherichia coli BL21

Annotation: RNA polymerase, sigma 70 (sigma D) factor

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 50 100 150 200 250 300 350 400 450 500 550 613 PF03979: Sigma70_r1_1" amino acids 4 to 79 (76 residues), 106.4 bits, see alignment E=1.9e-34 PF00140: Sigma70_r1_2" amino acids 96 to 126 (31 residues), 46.9 bits, see alignment (E = 6.7e-16) PF04546: Sigma70_ner" amino acids 137 to 348 (212 residues), 253.2 bits, see alignment E=7.2e-79 TIGR02393: RNA polymerase sigma factor RpoD" amino acids 375 to 611 (237 residues), 399.3 bits, see alignment E=6e-124 TIGR02937: RNA polymerase sigma factor, sigma-70 family" amino acids 375 to 600 (226 residues), 128.8 bits, see alignment E=1.6e-41 PF04542: Sigma70_r2" amino acids 379 to 449 (71 residues), 82.9 bits, see alignment E=3.5e-27 PF04539: Sigma70_r3" amino acids 458 to 533 (76 residues), 101.9 bits, see alignment E=5e-33 PF04545: Sigma70_r4" amino acids 547 to 600 (54 residues), 66.2 bits, see alignment 4.5e-22

Best Hits

Swiss-Prot: 100% identical to RPOD_ECOLI: RNA polymerase sigma factor RpoD (rpoD) from Escherichia coli (strain K12)

KEGG orthology group: K03086, RNA polymerase primary sigma factor (inferred from 100% identity to eoh:ECO103_3747)

MetaCyc: 100% identical to RNA polymerase sigma factor RpoD (Escherichia coli K-12 substr. MG1655)

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

Find the best match in UniProt

Protein Sequence (613 amino acids)

>ECD_02937 RNA polymerase, sigma 70 (sigma D) factor (Escherichia coli BL21)
MEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAP
DADDLMLAENTADEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIA
KRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEDLAPTATH
VGSELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGR
SHATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKK
NFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKD
INRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE
YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTP
EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESL
RAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH
PSRSEVLRSFLDD