Protein Info for ECD_03111 in Escherichia coli BL21

Annotation: targeting factor for csrBC sRNA degradation

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 50 100 150 200 250 300 350 400 450 500 550 600 646 transmembrane" amino acids 7 to 31 (25 residues), see Phobius details amino acids 131 to 155 (25 residues), see Phobius details PF17157: GAPES4" amino acids 34 to 130 (97 residues), 124.2 bits, see alignment E=3.6e-40 TIGR00254: diguanylate cyclase (GGDEF) domain" amino acids 222 to 381 (160 residues), 42.8 bits, see alignment E=2.2e-15 PF00990: GGDEF" amino acids 224 to 380 (157 residues), 114.2 bits, see alignment E=8.1e-37 PF00563: EAL" amino acids 403 to 628 (226 residues), 127.1 bits, see alignment E=1.1e-40

Best Hits

Swiss-Prot: 100% identical to CSRD_ECOLI: RNase E specificity factor CsrD (csrD) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 100% identity to eco:b3252)

Predicted SEED Role

"RNase E specificity factor CsrD"

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 (646 amino acids)

>ECD_03111 targeting factor for csrBC sRNA degradation (Escherichia coli BL21)
MRLTTKFSAFVTLLTGLTIFVTLLGCSLSFYNAIQYKFSHRVQAVATAIDTHLVSNDFSV
LRPQITELMMSADIVRVDLLHGDKQVYTLARNGSYRPVGSSDLFRELSVPLIKHPGMSLR
LVYQDPMGNYFHSLMTTAPLTGAIGFIIVMLFLAVRWLQRQLAGQELLETRATRILNGER
GSNVLGTIYEWPPRTSSALDTLLREIQNAREQHSRLDTLIRSYAAQDVKTGLNNRLFFDN
QLATLLEDQEKVGTHGIVMMIRLPDFNMLSDTWGHSQVEEQFFTLTNLLSTFMMRYPGAL
LARYHRSDFAALLPHRTLKEAESIAGQLIKAVDTLPNNKMLDRDDMIHIGICAWRSGQDT
EQVMEHAESATRNAGLQGGNSWAIYDDSLPEKGRGNVRWRTLIEQMLSRGGPRLYQKPAV
TREGQVHHRELMCRIFDGNEEVSSAEYMPMVLQFGLSEEYDRLQISRLIPLLRYWPEENL
AIQVTVESLIRPRFQRWLRDTLMQCEKSQRKRIIIELAEADVGQHISRLQPVIRLVNALG
VRVAVNQAGLTLVSTSWIKELNVELLKLHPGLVRNIEKRTENQLLVQSLVEACSGTSTQV
YATGVRSRSEWQTLIQRGVTGGQGDFFASSQPLDTNVKKYSQRYSV