Protein Info for LRK53_RS08005 in Rhodanobacter sp000427505 FW510-R12

Annotation: transcription-repair coupling factor

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 1196 PF17757: UvrB_inter" amino acids 131 to 219 (89 residues), 92.8 bits, see alignment 4e-30 PF21132: MFD_D3" amino acids 375 to 416 (42 residues), 45.7 bits, see alignment (E = 1.8e-15) amino acids 462 to 494 (33 residues), 25.2 bits, see alignment (E = 4.7e-09) TIGR00580: transcription-repair coupling factor" amino acids 464 to 1126 (663 residues), 988.9 bits, see alignment E=1.5e-301 PF02559: CarD_TRCF_RID" amino acids 525 to 581 (57 residues), 65.9 bits, see alignment 9.3e-22 PF04851: ResIII" amino acids 649 to 806 (158 residues), 39.8 bits, see alignment E=1.5e-13 PF00270: DEAD" amino acids 650 to 812 (163 residues), 89.8 bits, see alignment E=5.9e-29 PF00271: Helicase_C" amino acids 848 to 954 (107 residues), 72.2 bits, see alignment E=1.4e-23 PF03461: TRCF" amino acids 1054 to 1146 (93 residues), 98.8 bits, see alignment 6.6e-32

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

Find the best match in UniProt

Protein Sequence (1196 amino acids)

>LRK53_RS08005 transcription-repair coupling factor (Rhodanobacter sp000427505 FW510-R12)
MSSPIKHPPLPTTPKQRRYWTPPHGSARALLLAEAARSHEGLLVVVARDTQRAQALEAEL
KIFAGGLPVLHFPDWETLPYDAFSPHPEIVSQRIATLYRLPGVKRGVLVVPVATLMQRIA
PRSHITGSGLVLAKGQKLDLATEQRRLEASGYRHVPQVAEPGDFAVRGALLDIFPMGTAE
PYRIELFDDEVESIRSFDPETQRSQQPVDKVELLPAREFPLTGEAAKLFRGNLRERFPID
VRHCPLYQDMKEGVTPGGIEYYLPLFFEQTATLFDYLADDALFVLGEGAGEAADQFWVQT
AERYDQRAHDIERPVLPPAELYLPPEKLREQLNKRLRVEVVEPGHEHAIDTGTQPAPELP
LNRKGEEPGTSLRHFLASYPGRVLIAADSAGRREALIETLAAAGLKPEVLEDWRAFLLPL
QAEGGWEGVAPAGEEAEARALHPLQGIPFGHNPPLQAGEGAEAEGVKFAITIAPLEQGFA
LTKPALAVLTERELYGERVRSERERKRRRGAARDPEAIIRDLTELTPGAPIVHVDHGVGR
YQGLVSMDVGGMDGEFLTIEYAKGDKLYVPVAQLGLVSRYSGTAPELAPLHSLGGDAWER
ARRKAAEKVRDVAAELLAIYAQRQARGGESLPIDRQLVEEFGSTFPFEETPDQESAIEAV
LADLAAPRAMDRVICGDVGFGKTEVALRAAFATATAGKQVAVLVPTTLLAQQHYRNFADR
FADWPVRVDVLSRFKSAKEVNEALKRLADGQIDVIVGTHKLLQPDVKFRNLGLVIVDEEQ
RFGVRQKEQLKKLRAEVDLLTMTATPIPRTLNMAMAGLRDLSLIATPPEHRSAVRTFISA
WDPATIREALQRELSRGGQVYFLHNEVQSIERTVRELEELVPDARIRIAHGQMPERELEQ
VMADFHRQRFNVLVCTTIIETGIDIPTANTIIIDRADHFGLAQLHQLRGRVGRSHHRAYA
YLVVPDRRSITADAQKRLEALASLEELGAGFTLATHDLEIRGAGELLGDEQSGQIQEIGF
GLYTELLDRAVRALKSGKVPDFDLSSEHETEVELHLAALIPDDYLPDVHARLTLYKRIAS
ARNEDELRDLQVEMIDRFGLLPEPTRQLFAVASLKLMATPLGIRKLDFGANGGRIVFREK
PEIDPMTIIQLIQRQPRVYKLDGQDKLKVILELPGASERIRSAQDVLVTLGARRPA