Protein Info for Sama_1330 in Shewanella amazonensis SB2B

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 1155 PF17757: UvrB_inter" amino acids 134 to 222 (89 residues), 97.5 bits, see alignment 1.4e-31 TIGR00580: transcription-repair coupling factor" amino acids 150 to 1082 (933 residues), 1108.9 bits, see alignment E=0 PF21132: MFD_D3" amino acids 382 to 452 (71 residues), 63.6 bits, see alignment 4.6e-21 PF02559: CarD_TRCF_RID" amino acids 481 to 536 (56 residues), 66.2 bits, see alignment 7.6e-22 PF00270: DEAD" amino acids 608 to 768 (161 residues), 96.2 bits, see alignment E=6.4e-31 PF04851: ResIII" amino acids 608 to 762 (155 residues), 51 bits, see alignment E=5.9e-17 PF00271: Helicase_C" amino acids 806 to 910 (105 residues), 68.1 bits, see alignment E=2.8e-22 PF03461: TRCF" amino acids 1010 to 1101 (92 residues), 93.4 bits, see alignment E=3.2e-30

Best Hits

KEGG orthology group: K03723, transcription-repair coupling factor (superfamily II helicase) [EC: 3.6.4.-] (inferred from 62% identity to aha:AHA_2003)

Predicted SEED Role

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

Isozymes

Compare fitness of predicted isozymes for: 3.6.4.-

Use Curated BLAST to search for 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)

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 A1S581 at UniProt or InterPro

Protein Sequence (1155 amino acids)

>Sama_1330 transcription-repair coupling factor (RefSeq) (Shewanella amazonensis SB2B)
MSSFTVDRLPKTPAKGRVSAVRLPGGVARALTLAEMTCSYAGTTLIVTSDTPTALVLEAE
LGYLLKPRGIDICLFPDRETLPYDSFSPHQDLISQRLETLSNLERGKGRLVIVPLTTLMV
RLPPKAFLAANVLILKKGDRYQLQQMRQHLVDTGYHLVEQVYEHGEFAIRGSILDIFPSG
ASEPLRIELFDDEVESIRHFDPETQRSSGEVDSIRMLPAREFPTDSQAIEGFRQRYRRTF
ETVNNAAESVYQLVSRNLMPAGIENYLPLFFDDTATLFDYLPEELQIITTGALHQAAEHH
LGEIHSRYEDRQVDPLRPLLPPKTLYQTTEELFARFKLYPRIDLSGDEGDKTLEAAPLPD
IRANHKLKQPLESLANWAQGGQRIAFVAESEGRREALLELLGKAGLKPKLFGHLDEFLAS
DSPHGLVVAPLAMGCQLKMGKSQLAVVCETELFGERVSQERRRDKQRQLSQDVLIKNLAE
LKVGQPVVHLEHGVGLYQGLETLDTGGLVAEYLKLEYAGGDKLYVPVSALHLISRFAVGN
DESAPLNRLGNESWSKAKRKAIEKIRDVAAELLDVYARREARPGDPCTLDEAEYAQFAQG
FPFEETVDQETAIKAVIDDMCQPKAMDRLVCGDVGFGKTEVAMRAAFLAVSSGKQVVVLV
PTTLLAQQHFENFKDRFADWPVRIEVMSRFRTAKEQQAVLSAMGEGKVDIVIGTHKLLNT
ELNFESLGLLIIDEEHRFGVRQKERIKAMRANVDILTLTATPIPRTLNMAMSGMRDLSII
ATPPAKRLAVKTFVREYDKATVREAILREILRGGQVYYLHNQVETIEKAAQDIRELLPEA
RVVTAHGQMRERELERVMSDFYHQRFNVLVCTTIIETGIDVPSANTILIDRADHFGLAQL
HQLRGRVGRSHHQAYAYLMTPHPKLMTVDARKRLEAIDALEDLGAGFMLATQDLEIRGAG
ELLGDEQSGHISKIGFSLYMEMLEGAVKALKQGKEPSLRQMLGAQCEIDLRIPALLPDDY
VNDVNMRLSLYKRIAGCDTEKAVDEMKVELIDRFGLLPDATRNLLTMTVQKHRATRLGAT
KIEMHGRGGSIEFGEEHRVDPGFIIGLLSSQPQVYRMDGPNKLRFTMPCETAKERLELLE
LLLEQLEQHSVGEGK