Protein Info for SMa0260 in Sinorhizobium meliloti 1021
Annotation: GabD3 succinate-semialdehyde dehdyrogenase
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: 55% identical to SSDH_PAENI: Succinate-semialdehyde dehydrogenase (sad) from Paenarthrobacter nicotinovorans
KEGG orthology group: K00135, succinate-semialdehyde dehydrogenase (NADP+) [EC: 1.2.1.16] (inferred from 100% identity to sme:SMa0260)MetaCyc: 49% identical to succinate-semialdehyde dehydrogenase (NADP+) GabD (Escherichia coli K-12 substr. MG1655)
SUCCSEMIALDDEHYDROG-RXN [EC: 1.2.1.79]; Glutarate-semialdehyde dehydrogenase. [EC: 1.2.1.79, 1.2.1.20]
Predicted SEED Role
No annotation
MetaCyc Pathways
- TCA cycle IV (2-oxoglutarate decarboxylase) (8/9 steps found)
- 4-aminobutanoate degradation II (2/2 steps found)
- 4-aminobutanoate degradation III (2/2 steps found)
- superpathway of 4-aminobutanoate degradation (2/3 steps found)
- L-lysine degradation X (4/6 steps found)
- superpathway of L-arginine and L-ornithine degradation (9/13 steps found)
- superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation (7/11 steps found)
- L-lysine degradation IV (2/5 steps found)
- L-lysine degradation I (3/7 steps found)
- 4-hydroxyphenylacetate degradation (3/8 steps found)
- L-lysine degradation III (1/6 steps found)
- nicotine degradation II (pyrrolidine pathway) (3/11 steps found)
- nicotine degradation I (pyridine pathway) (5/17 steps found)
- superpathway of L-lysine degradation (15/43 steps found)
KEGG Metabolic Maps
Isozymes
Compare fitness of predicted isozymes for: 1.2.1.16
Use Curated BLAST to search for 1.2.1.16 or 1.2.1.20 or 1.2.1.79
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 Q930Q6 at UniProt or InterPro
Protein Sequence (487 amino acids)
>SMa0260 GabD3 succinate-semialdehyde dehdyrogenase (Sinorhizobium meliloti 1021) MTFHAKFSGYADPALHAAGLYIGGKWQSGSGITVLDPSTGNLLAEVADASIEDAQRAVDA ADAAAAGWRATPARQRSEILRRWYQLMTQHAEELATLIALENGKALADARGEVAYAAEFF RWYAEEATRIPGEFRHTPSGSHNILVDHEPIGIAVLITPWNFPAAMATRKIGPALAAGCT VILKPASETPLTAYAMARLGEEAGVPPGVVNVLTTSNPGGITNAMLADPRVRKLSFTGST GVGRVLLAEAAKSVVSCSMELGGNAPFIVFDDADLEVALDGAMIAKMRNAGEACTAANRF YVQAGIHDAFVAGLTARMKSLKLGPGYDPETQCGPMITQNAVRKIDRLVSEALAAGARAT TGGKPLTENGYFYPPTVLENVPVNASIAREEIFGPVAPVYKFESDDEAIRLANNTEYGLA AYIYSRDLKRAMKVGKRIETGMLGINRGLMSDPAAPFGGVKQSGLGREGGVTGILEFMEP KYFAVDY