Protein Info for MIT1002_00733 in Alteromonas macleodii MIT1002

Annotation: Sigma-70

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 50 100 150 200 250 300 350 400 450 500 550 610 PF03979: Sigma70_r1_1" amino acids 4 to 79 (76 residues), 105.3 bits, see alignment E=4e-34 PF00140: Sigma70_r1_2" amino acids 96 to 126 (31 residues), 48.5 bits, see alignment (E = 2.1e-16) PF04546: Sigma70_ner" amino acids 137 to 345 (209 residues), 238.4 bits, see alignment E=2.3e-74 TIGR02937: RNA polymerase sigma factor, sigma-70 family" amino acids 372 to 597 (226 residues), 126.2 bits, see alignment E=9.9e-41 TIGR02393: RNA polymerase sigma factor RpoD" amino acids 372 to 608 (237 residues), 400.2 bits, see alignment E=3.1e-124 PF04542: Sigma70_r2" amino acids 376 to 446 (71 residues), 82.9 bits, see alignment E=3.4e-27 PF04539: Sigma70_r3" amino acids 455 to 531 (77 residues), 99.5 bits, see alignment E=2.8e-32 PF04545: Sigma70_r4" amino acids 544 to 597 (54 residues), 66.2 bits, see alignment 4.5e-22

Best Hits

Swiss-Prot: 79% 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 98% identity to amc:MADE_01730)

MetaCyc: 79% 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 (610 amino acids)

>MIT1002_00733 Sigma-70 (Alteromonas macleodii MIT1002)
MAQSKQSQIKLLIAKGKEQGYLTFAEVNDHLPQDIVDSDQIEDIIRMINDMGIQVSESAP
DADELLMQEANADEDAAEAAAQALATVESEIGRTTDPVRMYMREMGTVELLTREGEIEIA
KRIEDGINQVQCSVAEYPEAITYLLDQWDLYEAEEIRLSDIISGFVDPNDEQDLAPTATH
VGSELSEEELDDEDDDEDDDDSDEDDSGVDPELARERFTELREQYLKTREVIEKKGRAHA
DSRTQINALSDVFKEFRLVPKQFDRMVKNMREMMDKVRIQERLVMKFCVVNAKMPKKDFI
KAFAGNETSNAWLHEAVKSGAPYAADLAVNQEEIERCISKMNQVEQETGLVIADIKDINR
RMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR
GYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEEL
SERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTIIQPLDSATGGSLKDA
TQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR
SEQLRSFLDE