Protein Info for GFF29 in Pseudomonas sp. DMC3

Annotation: Membrane-bound lytic murein transglycosylase F

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 798 signal peptide" amino acids 1 to 22 (22 residues), see Phobius details transmembrane" amino acids 276 to 297 (22 residues), see Phobius details PF00497: SBP_bac_3" amino acids 46 to 264 (219 residues), 58.6 bits, see alignment E=2.4e-19 TIGR00229: PAS domain S-box protein" amino acids 332 to 446 (115 residues), 43.4 bits, see alignment E=1.7e-15 amino acids 476 to 579 (104 residues), 30.3 bits, see alignment E=2e-11 PF13188: PAS_8" amino acids 333 to 383 (51 residues), 23.6 bits, see alignment 1.5e-08 PF00989: PAS" amino acids 333 to 436 (104 residues), 28 bits, see alignment E=7.8e-10 PF08448: PAS_4" amino acids 334 to 442 (109 residues), 30.6 bits, see alignment E=1.4e-10 PF13426: PAS_9" amino acids 339 to 439 (101 residues), 31.9 bits, see alignment E=5.4e-11 PF08447: PAS_3" amino acids 480 to 559 (80 residues), 47.5 bits, see alignment E=7.2e-16 PF07730: HisKA_3" amino acids 600 to 666 (67 residues), 53.2 bits, see alignment E=1.5e-17 PF02518: HATPase_c" amino acids 706 to 796 (91 residues), 50.9 bits, see alignment E=8e-17

Best Hits

KEGG orthology group: K07675, two-component system, NarL family, sensor histidine kinase UhpB [EC: 2.7.13.3] (inferred from 91% identity to pfo:Pfl01_5127)

Predicted SEED Role

"Probable two-component sensor, near polyamine transporter" in subsystem Polyamine Metabolism

Isozymes

Compare fitness of predicted isozymes for: 2.7.13.3

Use Curated BLAST to search for 2.7.13.3

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 (798 amino acids)

>GFF29 Membrane-bound lytic murein transglycosylase F (Pseudomonas sp. DMC3)
MKRFCCLWVIGCLWFPLMGWAAPAPPDHAAQLSPEQQQWLAQHNELRVGLVLQAPYATYD
RRLQRLSGANVELMKLLANTLGVELSWRNFQDLGALENALREGEIDIAPGLSQTPSALRL
WQFSDPYMRVPQLVVSDQKSSGAVDLEKLDSQTRVAVRMPSSTADYLRSNYPHLNLQGVP
LERQALQLLLSQQASYAVVDEAQLGRLSVEPEFAELVVVGDIGLPQLLRVASRRDWPELA
GIVQSALRAIPAKDLEQLHNQWLQPKYPRLTESPGFWQNLSLLFAVMLLSCAAIVAWQRR
QQRSLEQRLLSAREDIALRAASEEALRLTQFSIDQSTVGILWVNWDSHVRYANRAAENML
GYPSGGLIERPLIDFEPGLHMDRWLNLWKRARASEEGLLSFETSCLRADGSVLPADVSLS
FLRFRDSEYLVVYLTDVTDRRRALAALQESEARLQGIAANVPGLVFRLERAPVTGQIDFA
YISEGSESLVGYAPAAIAHRDMGLRSLVHPDDKASYHRTQDQALDTDSDWSWQGRIVTRQ
GEQRWAEIKAITRQLEDGAYVWDGIVWDISESKRIELELAASREQLRELSAHLESVREEE
KARIAREVHDELGQMLTVLKLETSMCELAYAQLDPGLNERLNSMKRLIAQLFQLVRDVAT
ALRPPILDAGIASAIEWQARRFEARTQIPCLVQVPDNLPALSDAKAVGLFRILQEALTNV
MRHAQAHTVELTLELAGDELCLTVSDDGVGFVAAEGRPTSFGLVGMRERVLIMGGRLELV
SEPGEGTSLVVRVPVSEV