Protein Info for MIT1002_00659 in Alteromonas macleodii MIT1002

Annotation: RNA polymerase-associated protein RapA

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 900 953 PF18339: Tudor_1_RapA" amino acids 7 to 57 (51 residues), 72.4 bits, see alignment 8.1e-24 PF18337: Tudor_RapA" amino acids 59 to 120 (62 residues), 75.7 bits, see alignment 9.1e-25 PF04851: ResIII" amino acids 162 to 332 (171 residues), 50.9 bits, see alignment E=6.2e-17 PF00270: DEAD" amino acids 175 to 332 (158 residues), 33 bits, see alignment E=1.8e-11 PF00176: SNF2-rel_dom" amino acids 176 to 362 (187 residues), 65.6 bits, see alignment E=1.5e-21 PF00271: Helicase_C" amino acids 484 to 594 (111 residues), 58.8 bits, see alignment E=2.1e-19 PF12137: RapA_C" amino acids 598 to 950 (353 residues), 398.2 bits, see alignment E=1.2e-122

Best Hits

KEGG orthology group: K03580, ATP-dependent helicase HepA [EC: 3.6.4.-] (inferred from 94% identity to amc:MADE_03699)

Predicted SEED Role

"RNA polymerase associated protein RapA (EC 3.6.1.-)" (EC 3.6.1.-)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 3.6.1.-, 3.6.4.-

Use Curated BLAST to search for 3.6.1.- or 3.6.4.-

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 (953 amino acids)

>MIT1002_00659 RNA polymerase-associated protein RapA (Alteromonas macleodii MIT1002)
MSSDSQFSVGQRWLSNTEIELGLGVVIGSDFRSVEVLYPATGEARKYTKQDAPLTRLIFE
IGETVKSQDGWEMTITEKEESQDLFIYHGLREDTKAQARLPETMLDSHIRLNQPEKRLFS
QQLDNPKWFDLRERALDHQYDYLRSNTIGLAGARISLIPHQLHIASEVGGRHAPRVLLAD
EVGLGKTIEAALIIHQQLKTGRAERVLILVPDSLMHQWLVEMLRRVNLPFAIYDESRCEA
IEKSEGLQDDETSDASAVNPFENDQLVLCSIDFLSKSEKRQQQIQAAGWDLMVVDEAHHL
AWSSEAPSAEYLCVEALANQTPGVLLLTATPDQLGHESHFARLRLLDPARFHSYDAFLDE
ESKYSQLADAVAPLLSDAEPNDKQRSKLAEFAPDVMEHAGDLSSPENRHALLHQLIDCHG
TGRMLFRNRRANIEGFPMRKLSAYELALPEVYSDAVSGGDLTYSLYPERMASVVNSWTKQ
DPRVEWLLDFMQSVKPEKILLICASARTAQELGEVIRTQTGIRHSVFHEGMSIVERDKAA
HYFADEEDGAQILLCSEIGSEGRNFQFAHHLVLFDLPITPDLLEQRIGRLDRIGQTQTVQ
IHVPYLAKTAQHVLLDWYHEGLNAFEKTCPTGSGVFDDVKPLLIGACLHPDDMSARDELV
NMSVTLNSQLVAQLEAGRDRLLELNASGEGRVEQLLEDIITLDSEQDLSRFMGRVFDAIG
VQQDEKGNDCFILMPTESMVSQLPGLDPEGMTVTYKRRVATTLENVQFLSWDHPLVHTAM
DVVLTDVHGKSSMGFIAEPSLPKGAYWVEALFVLQAQAPKALQLGRFLPQTPVRVCLDAQ
GNPSELSFDVKRKIGRKISAQLLKALQQPLELAIEKARKLAHQQANQKQHDALNSMHSTL
NEEIQRLRDLQKRNPAVRDSEIEFIETQMNALDKVIQDADVQLDAIRIVVNNP