Protein Info for Shew_1630 in Shewanella loihica PV-4

Annotation: transcription-repair coupling factor (RefSeq)

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

1 100 200 300 400 500 600 700 800 900 1000 1100 1160 PF17757: UvrB_inter" amino acids 135 to 222 (88 residues), 102.9 bits, see alignment 2.8e-33 TIGR00580: transcription-repair coupling factor" amino acids 150 to 1087 (938 residues), 1119.8 bits, see alignment E=0 PF21132: MFD_D3" amino acids 386 to 456 (71 residues), 71.5 bits, see alignment 1.6e-23 PF02559: CarD_TRCF_RID" amino acids 485 to 541 (57 residues), 64.7 bits, see alignment 2.3e-21 PF00270: DEAD" amino acids 612 to 772 (161 residues), 99.8 bits, see alignment E=5.1e-32 PF04851: ResIII" amino acids 632 to 766 (135 residues), 45.7 bits, see alignment E=2.4e-15 PF00271: Helicase_C" amino acids 810 to 914 (105 residues), 73.1 bits, see alignment E=7.9e-24 PF03461: TRCF" amino acids 1014 to 1105 (92 residues), 95.1 bits, see alignment E=9.2e-31

Best Hits

Predicted SEED Role

"Transcription-repair coupling factor" in subsystem DNA-replication or Transcription factors bacterial

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 A3QDE9 at UniProt or InterPro

Protein Sequence (1160 amino acids)

>Shew_1630 transcription-repair coupling factor (RefSeq) (Shewanella loihica PV-4)
MNAFSILTPPKVKGVKSPQTLSQLTGAARAISLAKLCEQYSSMTLVVTPDTPSALRLEAE
LGYLLAPKSIPVMLFPDRETLPYDSFSPHQDLVSQRLETLSRIPSAGHSLVIVPMSTLMV
KLPPQSFLTGNVLLLSKGDNYPLEAVRSQLVNTGYHHVEQVYEHGEFAVRGSIIDLFPMG
AQSPYRIELFDDEVESIREFDPETQRSSGEIESIRLLPAKEFPTNDAAIEGFRQRYRRQF
EVVVKEPESIYQMVSRKVMPAGIESYLPLFFDETASLFDYLPGECQLVQVGDLENAAKHH
LQEINQRYENRRVDPLRPLLPPKDLYLLTEQVFEAFKQLPRFLIKGNEATGTCVEAQLEA
LPNIAANHKLKQPLISLKEFANGGTPILFCVESEGRREALLELLAKIEIKPALLDHLDSF
SHKPQPFGLIVAPLSQGAIYHPKKGPSWALVCETELFGQRIAQQRRRDKQRQVSQDALIK
DLAELKVGQPIVHLDHGVALYQGLETLDTGGLVAEYLKLEYAGGDKLYVPVASLNLISQY
SVGADDAPQLNKLGNESWTKAKRKAIEKIRDVAAELLDVYARRQARPGEACRLDREEYAQ
FAGSFPFEETVDQETAIDAVLTDMCSPISMDRLVCGDVGFGKTEVAMRAAFVAVNDGKQV
AILVPTTLLAQQHYENFKDRFADWPIKIEVMSRFKTAKEQQAVLKQLELGQVDIVIGTHK
LLQSEAKFENLGLLIIDEEHRFGVRQKEKIKALRANIDILTLTATPIPRTLNMAMSGMRD
LSIIATPPAKRLAVKTFVREYDDATVREALLREILRGGQVYFLHNSVETIEKRAREIEAL
LPEARVVTAHGQMRERDLEKVMSDFYHQKYNVLVCTTIIETGIDVPSANTIIIERADNFG
LAQLHQLRGRVGRSHHQAYAYLMMPHPKRMTKDAIKRLEAIGALEDLGAGFMLATQDLEI
RGAGELLGDEQSGHISKIGFTLYMEMLEDAVKSLKEGKEPSLDQMLRGQCEIDLRIPALL
PEDYVGDVNIRLSLYKRIANCATAQALDELKVELIDRFGLLPQATKNLMEVSLFKHQATA
LGIAKIEMHAKGGSLEFNNDHCVDPGFIIGLLQSQPQNYRMDGPSKLKFLMPTETDKDRL
ALLSLIISQLMQHRLGEPRV