Protein Info for HMPREF1078_RS17235 in Parabacteroides merdae CL09T00C40

Annotation: ribosome biogenesis GTPase Der

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 50 100 150 200 250 300 350 400 437 TIGR03594: ribosome-associated GTPase EngA" amino acids 4 to 434 (431 residues), 553.9 bits, see alignment E=4.1e-170 PF01926: MMR_HSR1" amino acids 5 to 120 (116 residues), 111.6 bits, see alignment E=1.6e-35 amino acids 177 to 295 (119 residues), 94 bits, see alignment E=4.6e-30 TIGR00231: small GTP-binding protein domain" amino acids 5 to 125 (121 residues), 85.6 bits, see alignment E=4.8e-28 amino acids 176 to 308 (133 residues), 76.9 bits, see alignment E=2.3e-25 PF00009: GTP_EFTU" amino acids 5 to 164 (160 residues), 38.1 bits, see alignment E=8.9e-13 amino acids 251 to 347 (97 residues), 44.9 bits, see alignment E=7.2e-15 PF02421: FeoB_N" amino acids 5 to 125 (121 residues), 58 bits, see alignment E=6e-19 amino acids 177 to 341 (165 residues), 45 bits, see alignment E=5.8e-15 PF04548: AIG1" amino acids 6 to 109 (104 residues), 28 bits, see alignment E=9.4e-10 PF14714: KH_dom-like" amino acids 354 to 435 (82 residues), 100.4 bits, see alignment E=3.9e-32

Best Hits

Swiss-Prot: 92% identical to DER_PARD8: GTPase Der (der) from Parabacteroides distasonis (strain ATCC 8503 / DSM 20701 / CIP 104284 / JCM 5825 / NCTC 11152)

KEGG orthology group: K03977, GTP-binding protein (inferred from 92% identity to pdi:BDI_2434)

Predicted SEED Role

"GTP-binding protein EngA" in subsystem Universal GTPases

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 (437 amino acids)

>HMPREF1078_RS17235 ribosome biogenesis GTPase Der (Parabacteroides merdae CL09T00C40)
MGNIVAIVGRPNVGKSTLFNRLTQTRQAIVNEEAGTTRDRQYGKAEWTGKEFSLIDTGGW
VINSDDVFEEEINKQVKVALEEADVILFVVDVLNGVTDLDNEVAAILRRAKKPVIVVANK
ADNFELHPSSAEFYSFGLGDPFCISAINGSCTGDLLDKIVATLPDDKQEMLEEELPRIAI
IGRPNAGKSSLINAFIGEDRHIVTDIAGTTRDSIYTKYNKFGLNFYLVDTAGIRKKGKVN
EDLEYYSVIRSIRAIENSDVCVLMLDATRGIESQDLNIFSLVQKNKKGLVVCVNKWDLVE
DKSQKVIDTFMSAIRERLAPFTDFPILFISALTKQRILKVLETAKDVYENRQRRVPTAKL
NEIMLPIIENYPPPAWKGKYIKIKYITQLPAGQVPSFVFFCNLPQWIKEPYKRFLENKIR
ENWNFTGTPINVFIREK