Protein Info for MMP_RS07030 in Methanococcus maripaludis S2

Annotation: DNA-directed RNA polymerase subunit A'

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 889 TIGR02390: DNA-directed RNA polymerase subunit A'" amino acids 8 to 880 (873 residues), 1506.5 bits, see alignment E=0 PF04997: RNA_pol_Rpb1_1" amino acids 8 to 316 (309 residues), 325.7 bits, see alignment E=8.4e-101 PF00623: RNA_pol_Rpb1_2" amino acids 318 to 492 (175 residues), 229.4 bits, see alignment E=7.5e-72 PF04983: RNA_pol_Rpb1_3" amino acids 495 to 658 (164 residues), 129.7 bits, see alignment E=2.6e-41 PF05000: RNA_pol_Rpb1_4" amino acids 685 to 790 (106 residues), 103.6 bits, see alignment E=1.3e-33 PF04998: RNA_pol_Rpb1_5" amino acids 797 to 862 (66 residues), 91.5 bits, see alignment 1.6e-29

Best Hits

Swiss-Prot: 90% identical to RPOA1_METVS: DNA-directed RNA polymerase subunit A' (rpoA1) from Methanococcus vannielii (strain ATCC 35089 / DSM 1224 / JCM 13029 / OCM 148 / SB)

KEGG orthology group: K03041, DNA-directed RNA polymerase subunit A' [EC: 2.7.7.6] (inferred from 100% identity to mmp:MMP1363)

Predicted SEED Role

"DNA-directed RNA polymerase subunit A' (EC 2.7.7.6)" in subsystem RNA polymerase archaeal (EC 2.7.7.6)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.7.7.6

Use Curated BLAST to search for 2.7.7.6

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein structures

Predict protein localization: PSORTb (archaea)

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 Q6LXI8 at UniProt or InterPro

Protein Sequence (889 amino acids)

>MMP_RS07030 DNA-directed RNA polymerase subunit A' (Methanococcus maripaludis S2)
MDRFDVPKEIGDITFGLLSPEQIRTMSVAKIVTADTYDDDGYPIDGGLMDTRLGVIDPGL
VCKSCSGRVGTCPGHFGHIELSKPVVHIGFAKDIYKILKAVCPHCGKVTITEIKRDEYLE
KMAKLEEDGGDPWTLCDDLLKEAAKGSVCPSCGEVKADVKYDKPTAYHQLDGKAQKQLTS
SEVREILEKIPAEDCKLLGINAKVARPEFMVLTVLPVPPVTVRPSITLESGERSEDDLTH
KLVDIIRINQRLEENINGGAPNLIIEDLWDLLQYHINTYFDNEAPGIPPARHRSGRPLRT
LAQRLKGKEGRFRHNLAGKRVNFSARTVISPDPRLSINEVGIPKLIAKELTVPEKVTPYN
IEKVRALLRNGSDNHPGVNYVVKKVRTKDGKEEEYKIKITDANKDMWVENITDGMVIERH
LSDGDIVLYNRQPSLHRMSIMAHKVKVLPYRTFRHNLCVCPPYNADFDGDEMNVHVPQSE
EARAEAEKLMLVEKHIVSPRFGGPIIGAIHDFISGAYVLTSSLFTKDEALTLLKSSGLNV
ELGEPDVIENNIEYYSGKSLFSKTLPEGLSLQYRAKICKKCDTCTKEECEHDAYVVIRNG
KLLRGVIDKNGFGSEAGIVLNTLVKDFGSEDARLFLDAATKMSIKAMVLKGFTTGIDDED
IPAEAIQEIQDLLNKAEQDVEDIVEKYENGTLESLPGRGVEESREAYIMQILGKARDQAG
NVAEKYLSKENHAALMARTGARGSLLNITMMAASVGQQSVRGGRVFRGYRERTLPHFGKG
SLDAKSHGFVRSCYKKGLAPTEYFFHAMGGREGLVDQAVRTAQSGYMQRRLVNALQDIRA
EYDGTVRDSRGLVVQFEYGEDLVDPAKADHGKGVDLDKIFTKVNSRYEN