Protein Info for SO2255 in Shewanella oneidensis MR-1

Name: mfd
Annotation: transcription-repair coupling factor (NCBI ptt file)

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 1164 PF17757: UvrB_inter" amino acids 135 to 222 (88 residues), 91.4 bits, see alignment 1.3e-29 TIGR00580: transcription-repair coupling factor" amino acids 150 to 1088 (939 residues), 1102.1 bits, see alignment E=0 PF21132: MFD_D3" amino acids 386 to 458 (73 residues), 67.1 bits, see alignment 4.3e-22 PF02559: CarD_TRCF_RID" amino acids 487 to 543 (57 residues), 64 bits, see alignment 4.4e-21 PF00270: DEAD" amino acids 614 to 774 (161 residues), 101.4 bits, see alignment E=1.8e-32 PF04851: ResIII" amino acids 614 to 768 (155 residues), 51.3 bits, see alignment E=5.4e-17 PF00271: Helicase_C" amino acids 812 to 916 (105 residues), 70.4 bits, see alignment E=6e-23 PF03461: TRCF" amino acids 1016 to 1107 (92 residues), 97.8 bits, see alignment E=1.6e-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)

Compare to protein 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 Q8EEV8 at UniProt or InterPro

Protein Sequence (1164 amino acids)

>SO2255 transcription-repair coupling factor (NCBI ptt file) (Shewanella oneidensis MR-1)
MTHISALTPPVVKNGTQMQTLSCIAGVGQAVTLASLIRQHQGTTLIVTSDTPTALSLELE
LNYLLAKTAIKVRLFPDRETLPYDSFSPHQDLISQRLETLSQITHAEHSVVIVPVTTLMM
RLPPKSYLSSNVFVLKKGDKYQLHDVRQQLTDTGYHLVEQVYEHGEFAIRGSILDIFPTG
VNMPLRIELFDDEVETIRHFDPETQRSSTPVNAVRLLPAKEFPTDSSAIEGFRQRYRRRF
EVIVKEPESVYQLVSRNLMPAGIENYLPLFFDEVSTLFDYLPKNTQLVTLGDIEKSARAH
LQEVEIRYEDRRVDPLRPLLAPKELYLLIEELFAAFKPLPRYQFVAPNPDTNGVAAQIDA
RALPEVSANHKLKQPLIALQDYAEQAPRMLFSAESEGRREALLELLGKIQLKPSVFSHFD
EFIQSDARLGLIVSPLSRGCLLGLGAQTAVSIICETELFGQRISQQRRREKQRQISNDTL
IKNLAELKVGQPIVHLEHGVALYQGLVTLDTGGIVAEYLQLEYSGGDKLYVPVSNLHLIS
RYSVGADGETHLNKLGNDTWAKAKNKAIEKIRDVAAELLDVYARRQARPGESCEINDEEY
AQFAQGFPFEETVDQESAIHAVLADMQSPTAMDRLVCGDVGFGKTEVAMRAAFVAVNDGK
QVVVLVPTTLLAQQHYENFKDRFADWPVVIEVMSRFRTAKEQTQVLKQLEEGKVDIVIGT
HKLLQSEAKFENLGLLIIDEEHRFGVRQKEKIKALRANVDILTLTATPIPRTLNMAMSGM
RDLSIIATPPAKRLAVKTFVRESDPATVREAILREILRGGQVYYLHNNVETIEKCAQDIS
TLLPEARVVVAHGQMRERDLERVMSDFYHQRFNVLVCTTIIETGIDVPSANTIIIERADT
FGLAQLHQLRGRVGRSHHQAYAYLMTPHPKRMTTDARKRLEAIDALEDLGAGFMLATQDL
EIRGAGELLGDEQSGHISKIGFSLYMEMLESAVKALKQGKEPSLAQMLNQQCEMELRIPA
LLPEDYVGDVNIRLSLYKRIASCDSEEALDELKVELIDRFGLLPDATKNLMEMTLYKHQA
TRLGATKIEVHAKGGSIEFSQDHSIDPGFIIGLLQSQPQIYRMDGPNKLKFILSAETAKD
RLALVKLLLEQLSQHQSQHRLGDK