| Title | Crystal structure of a glycerophosphodiester phosphodiesterase (GDPD) from Thermotoga maritima (TM1621) at 1.60 A resolution. Proteins 56 167-170 2004 | | Site | JCSG | | PDB Id | | Target Id | 283478 | | Molecular Characteristics | | Source | Thermotoga maritima msb8 | | Alias Ids | TPS1305,TM1621 | Molecular Weight | 25700.10 Da. | | Residues | 222 | Isoelectric Point | 5.18 | | Sequence | mivlghrgysakylentleafmkaieagangveldvrlskdgkvvvshdedlkrlfgldvkirdatvse lkeltdgkittlkevfenvsddkiinieikereaadavleiskkrknlifssfdldlldekfkgtkygy lideenygsienfvervekerpyslhvpyqafeleyavevlrsfrkkgivifvwtlndpeiyrkirrei dgvitdevelfvklr | | | BLAST FFAS | | Structure Determination | | Method | XRAY | Chains | 1 | | Resolution (Å) | 1.60 | Rfree | 0.18 | | Matthews' coefficent | 2.22 | Rfactor | 0.139 | | Waters | 422 | Solvent Content | 44.16 |
| Pathway | | Reactions found in Metabolic Reconstruction for TM1621 | Name: Glycerophosphodiester phosphodiesterase (Glycerophosphocholine)
Metabolic Subsystem: Glycerophospholipid Metabolism
Reaction: :
g3pc
Name:sn-Glycero-3-phosphocholine
Formula:C8H20NO6P
KEGG:
C00670
+
h2o
Name:H2O
Formula:H2O
KEGG:
C00001
-->
chol
Name:Choline
Formula:C5H14NO
KEGG:
C00114
+
glyc3p
Name:Glycerol 3-phosphate
Formula:C3H7O6P
KEGG:
C00093
+
h
Name:H+
Formula:H
KEGG:
C00080
Classification: EC:3.1.4.46
| Name: Glycerophosphodiester phosphodiesterase (Glycerophosphoethanolamine)
Metabolic Subsystem: Glycerophospholipid Metabolism
Reaction: :
g3pe
Name:sn-Glycero-3-phosphoethanolamine
Formula:C5H14NO6P
KEGG:
C01233
+
h2o
Name:H2O
Formula:H2O
KEGG:
C00001
-->
etha
Name:Ethanolamine
Formula:C2H8NO
KEGG:
C00189
+
glyc3p
Name:Glycerol 3-phosphate
Formula:C3H7O6P
KEGG:
C00093
+
h
Name:H+
Formula:H
KEGG:
C00080
Classification: EC:3.1.4.46
|
| Ligand Information | | Ligands | | | Metals | | | |
Protein Summary
The TM1621 gene of
Thermotoga maritima encodes a glycerophosphodiester phosphodiesterase (GDPD; EC:
3.1.4.46; Pfam03009; PubMed:
15162496).
Protein encoded by TM1621 gene has TIM beta/alpha-barrel fold (SCOP sunid:51350) and belongs to family of glycerophosphoryl diester phosphodiesterases (SCOP sunid:89508).
Ligand Summary
References
