The SDR (short-chain dehydrogenase/reductase and related enzymes) nomenclature initiative.
Short-chain dehydrogenases/reductases (SDR) constitute one of the largest enzyme superfamilies with presently over 46,000 members. In phylogenetic comparisons, members of this superfamily show early divergence where the majority have only low pairwise sequence identity, although sharing common structural properties. The SDR enzymes are present in virtually all genomes investigated, and in humans over 70 SDR genes have been identified. In humans, these enzymes are involved in the metabolism of a large variety of compounds, including steroid hormones, prostaglandins, retinoids, lipids and xenobiotics. It is now clear that SDRs represent one of the oldest protein families and contribute to essential functions and interactions of all forms of life. As this field continues to grow rapidly, a systematic nomenclature is essential for future annotation and reference purposes. A functional subdivision of the SDR superfamily into at least 200 SDR families based upon hidden Markov models forms a suitable foundation for such a nomenclature system, which we present in this paper using human SDRs as examples.
Persson
Bengt
B
IFM Bioinformatics, Linköping University, Linköping, Sweden. bpn@ifm.liu.se
Kallberg
Yvonne
Y
Bray
James E
JE
Bruford
Elspeth
E
Dellaporta
Stephen L
SL
Favia
Angelo D
AD
Duarte
Roser Gonzalez
RG
Jörnvall
Hans
H
Kavanagh
Kathryn L
KL
Kedishvili
Natalia
N
Kisiela
Michael
M
Maser
Edmund
E
Mindnich
Rebekka
R
Orchard
Sandra
S
Penning
Trevor M
TM
Thornton
Janet M
JM
Adamski
Jerzy
J
Oppermann
Udo
U
D020407:Internet; D008390:Markov Chains; D044925:Oxidoreductases Acting on CH-CH Group Donors; D009626:Terminology as Topic
D044925:Oxidoreductases Acting on CH-CH Group Donors