Protein Info for Psyr_2568 in Pseudomonas syringae pv. syringae B728a

Annotation: Short-chain dehydrogenase/reductase SDR

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 50 100 150 200 251 transmembrane" amino acids 16 to 35 (20 residues), see Phobius details PF00106: adh_short" amino acids 15 to 200 (186 residues), 173.2 bits, see alignment E=9.4e-55 PF01370: Epimerase" amino acids 17 to 151 (135 residues), 24.4 bits, see alignment E=3.6e-09 PF08659: KR" amino acids 17 to 165 (149 residues), 36.6 bits, see alignment E=9.2e-13 PF13561: adh_short_C2" amino acids 21 to 249 (229 residues), 209.8 bits, see alignment E=9.4e-66

Best Hits

Swiss-Prot: 56% identical to GOLD_LISIN: NAD-dependent glycerol dehydrogenase (golD) from Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)

KEGG orthology group: K00065, 2-deoxy-D-gluconate 3-dehydrogenase [EC: 1.1.1.125] (inferred from 100% identity to psb:Psyr_2568)

MetaCyc: 52% identical to D-threitol dehydrogenase (Mycolicibacterium smegmatis)
ERYTHRULOSE-REDUCTASE-RXN [EC: 1.1.1.403]

Predicted SEED Role

"Sorbitol-6-phosphate 2-dehydrogenase (EC 1.1.1.140)" in subsystem D-Sorbitol(D-Glucitol) and L-Sorbose Utilization (EC 1.1.1.140)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.1.1.125, 1.1.1.140

Use Curated BLAST to search for 1.1.1.125 or 1.1.1.140 or 1.1.1.403

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

See Q4ZTB5 at UniProt or InterPro

Protein Sequence (251 amino acids)

>Psyr_2568 Short-chain dehydrogenase/reductase SDR (Pseudomonas syringae pv. syringae B728a)
MSEFWNKAFDLNGRCAVITGGAAGIGLACASLLVARGARVALLDRDPAVAEVAAGLGSGH
LGIAVDLRRVDQVNSTIDSVFEHFQRIDYLVNSAGVAMLDKAVDVSEEAWDTTLDINLKA
SFFVAQACARHMLGQGSGRIVNLASQAAVIGLDRHVAYCASKAAVVGMTKVLAMEWAPHI
NVNAISPTIVETALGKKAWAGEVGERAKTQIPAGRFAQPEEIAGLALYLLSDAASMITGE
NVVIDGGYSIQ