Protein Info for PP_4903 in Pseudomonas putida KT2440
Annotation: Putative ribosome biogenesis GTPase RsgA
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
Best Hits
Swiss-Prot: 100% identical to RSGA_PSEPK: Small ribosomal subunit biogenesis GTPase RsgA (rsgA) from Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)
KEGG orthology group: K06949, ribosome biogenesis GTPase [EC: 3.6.1.-] (inferred from 100% identity to ppu:PP_4903)MetaCyc: 48% identical to ribosome small subunit-dependent GTPase A (Escherichia coli K-12 substr. MG1655)
3.6.1.15,3.6.5.6,3.6.5.5,3.6.5.4,3.6.5.3,3.6.5.2,3.6.5.1,3.6.1.-,3.6.1.5 [EC: 3.6.1.15, 3.6.1.5, 3.6.5.1, 3.6.5.2, 3.6.5.3, 3.6.5.4, 3.6.5.5, 3.6.5.6]
Predicted SEED Role
"Ribosome small subunit-stimulated GTPase EngC" in subsystem Universal GTPases
MetaCyc Pathways
- superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (18/18 steps found)
- pyrimidine deoxyribonucleotides de novo biosynthesis I (9/9 steps found)
- superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli) (12/14 steps found)
- pyrimidine deoxyribonucleotides de novo biosynthesis III (8/9 steps found)
- pyrimidine deoxyribonucleotides de novo biosynthesis IV (6/7 steps found)
- pyrimidine deoxyribonucleotides biosynthesis from CTP (6/8 steps found)
- UTP and CTP dephosphorylation I (5/7 steps found)
- UTP and CTP dephosphorylation II (1/3 steps found)
KEGG Metabolic Maps
- Folate biosynthesis
- Lipopolysaccharide biosynthesis
- Purine metabolism
- Pyrimidine metabolism
- Thiamine metabolism
Isozymes
Compare fitness of predicted isozymes for: 3.6.1.-, 3.6.1.15
Use Curated BLAST to search for 3.6.1.- or 3.6.1.15 or 3.6.1.5 or 3.6.5.1 or 3.6.5.2 or 3.6.5.3 or 3.6.5.4 or 3.6.5.5 or 3.6.5.6
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 Q88DC4 at UniProt or InterPro
Protein Sequence (343 amino acids)
>PP_4903 Putative ribosome biogenesis GTPase RsgA (Pseudomonas putida KT2440) MAKRQLNRRQNWRIEKIQGERAARAAKREQHALQELEGGDLGPEQLGLVIAHFGVQVEVE AQDGETAGQVFRCHLRANLPALVTGDRVVWRAGNQGIGVIVAQMPRSTELCRPNNHGQLK PVAANVDLIVIVFAPAPEPHPNLIDRYLVAAEHAGLRPLLLLNKADLINDENGPGLHALL EVYRELGYPLLEVSAHHGDGMQRLQQQLDGHISVFVGQSGVGKSSLVNSLLPDAGTRVGD LSEWSGQGTHTTTTARLYHFPNGGDLIDSPGIREFGLGHVSRDDVEDGFIEFRDLFGTCR FRDCKHDREPGCALLKALEEGRIKPQRMNSYRSIIASLAEDSY