Protein Info for LRK54_RS02040 in Rhodanobacter denitrificans FW104-10B01

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 1152 PF17757: UvrB_inter" amino acids 131 to 219 (89 residues), 92.5 bits, see alignment 5e-30 TIGR00580: transcription-repair coupling factor" amino acids 149 to 1082 (934 residues), 1102.8 bits, see alignment E=0 PF21132: MFD_D3" amino acids 375 to 450 (76 residues), 78 bits, see alignment 1.5e-25 PF02559: CarD_TRCF_RID" amino acids 481 to 537 (57 residues), 65.1 bits, see alignment 1.7e-21 PF04851: ResIII" amino acids 605 to 762 (158 residues), 40.3 bits, see alignment E=1.2e-13 PF00270: DEAD" amino acids 606 to 768 (163 residues), 90.1 bits, see alignment E=5e-29 PF00271: Helicase_C" amino acids 804 to 910 (107 residues), 70.3 bits, see alignment E=5.8e-23 PF03461: TRCF" amino acids 1010 to 1102 (93 residues), 99.2 bits, see alignment E=4.7e-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)

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 (1152 amino acids)

>LRK54_RS02040 transcription-repair coupling factor (Rhodanobacter denitrificans FW104-10B01)
MPSPIKHPPLPTSPKQCRHWTPPHGSARALLLAEAARAHDGLLVVVARDTQRAQALEAEL
KIFAGGLPVLHFPDWETLPYDVFSPHPEIVSQRVATLYRLPSVKRGVLVVPVATLMQRIA
PHSHITGSGLVLAKGQKLDLAGEQRRLEASGYRHVPQVAEPGDFAVRGALLDIFPMGTAE
PYRIELFDDEVESIRSFDPETQRSQQPVDRVELLPAREFPLTEEAAKEFRGNLRERFPID
VRRCPLYQDMKEGVTPGGIEYYLPLFFQQTATLFDYLADDALFVLGEGAGEAADQFWAQT
AERYDQRAHDIERPVLPPAELYLPPEQLRERLNKRLRVEVVEPGHEHAVDTGTQPAPELP
LNRKGEEPGTSLRHFLASYPGRVLIAADSAGRREALVETLAGAGMKPDNVDGWTSFLAED
AQRFAITIASLEQGFALTKPAITVLTERELYGERVRSERERKRRRGTARDPEAIIRDLTE
LTPGAPIVHVDHGVGRYQGLVSMDVGGMDGEFLTIEYARGDKLYVPVAQLGLVSRYSGTA
PELAPLHSLGGDAWERARRKAAEKVRDVAAELLAIYAQRQARGGESLPIDRQLVEEFGSS
FPFEETPDQESAIEAVLDDLAAPRAMDRVICGDVGFGKTEVALRAAFATATAGRQVAVLV
PTTLLAQQHYRNFADRFADWPVRVDVLSRFKSAKEVNEALKRLADGQIDVIVGTHKLLQP
DVKFKNLGLVIVDEEQRFGVRQKEQLKKLRAEVDLLTMTATPIPRTLNMAMAGLRDLSLI
ATPPAHRTAVRTFISAWDPATIREALQRELSRGGQVYFLHNEVQSIERTVRELEELVPDA
RIRIAHGQMPERELEGVMADFHRQRFNVLVCTTIIETGIDIPTANTIIIDRADRFGLAQL
HQLRGRVGRSHHRAYAYLVVPDRRSITADAQKRLEALASLEELGAGFTLATHDLEIRGAG
ELLGDEQSGQIQEIGFGLYTELLDRAVRALKSGKVPDFDLSSEHETEVELHLPALIPDDY
LPDVHHRLTLYKRIASARSEDELRDLQVEMIDRFGLLPEPTRQLFAVASLKLMATPLGIR
KLDFGANGGRIVFREKPEVNPMTIIQLIQRQPRVYKLDGQDKLKVILELPGASERIRSAQ
ELLVMLGARRPA