1PD2
CRYSTAL STRUCTURE OF HEMATOPOIETIC PROSTAGLANDIN D SYNTHASE COMPLEX WITH GLUTATHIONE
External Resource: Annotation
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A [auth 1] | d1pd211 | All alpha proteins | GST C-terminal domain-like | GST C-terminal domain-like | Glutathione S-transferase (GST), C-terminal domain | Class sigma GST | Norway rat (Rattus norvegicus ) [TaxId: 10116 ], | SCOPe (2.08) |
A [auth 1] | d1pd212 | Alpha and beta proteins (a/b) | Thioredoxin fold | Thioredoxin-like | Glutathione S-transferase (GST), N-terminal domain | Class sigma GST | Norway rat (Rattus norvegicus ) [TaxId: 10116 ], | SCOPe (2.08) |
B [auth 2] | d1pd221 | All alpha proteins | GST C-terminal domain-like | GST C-terminal domain-like | Glutathione S-transferase (GST), C-terminal domain | Class sigma GST | Norway rat (Rattus norvegicus ) [TaxId: 10116 ], | SCOPe (2.08) |
B [auth 2] | d1pd222 | Alpha and beta proteins (a/b) | Thioredoxin fold | Thioredoxin-like | Glutathione S-transferase (GST), N-terminal domain | Class sigma GST | Norway rat (Rattus norvegicus ) [TaxId: 10116 ], | SCOPe (2.08) |
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A [auth 1] | SCOP2 Family | Glutathione S-transferase (GST), C-terminal domain | 8025169 | 4000976 | SCOP2 (2022-06-29) |
A [auth 1] | SCOP2 Family | Glutathione S-transferase (GST), N-terminal domain | 8031997 | 4000472 | SCOP2 (2022-06-29) |
A [auth 1] | SCOP2 Superfamily | GST C-terminal domain-like | 8037548 | 3000305 | SCOP2 (2022-06-29) |
A [auth 1] | SCOP2 Superfamily | Thioredoxin-like | 8044375 | 3000031 | SCOP2 (2022-06-29) |
B [auth 2] | SCOP2B Superfamily | Thioredoxin-like | 8044375 | 3000031 | SCOP2B (2022-06-29) |
B [auth 2] | SCOP2B Superfamily | GST C-terminal domain-like | 8037548 | 3000305 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A [auth 1] | GST_C_3 | e1pd211 | A: alpha superhelices | X: Repetitive alpha hairpins | H: Glutathione S-transferase (GST)-C (From Topology) | T: Glutathione S-transferase (GST)-C | F: GST_C_3 | ECOD (1.6) |
A [auth 1] | GST_N_5 | e1pd212 | A: a+b three layers | X: Thioredoxin-like | H: Thioredoxin-like (From Topology) | T: Thioredoxin-like | F: GST_N_5 | ECOD (1.6) |
B [auth 2] | GST_C_3 | e1pd221 | A: alpha superhelices | X: Repetitive alpha hairpins | H: Glutathione S-transferase (GST)-C (From Topology) | T: Glutathione S-transferase (GST)-C | F: GST_C_3 | ECOD (1.6) |
B [auth 2] | GST_N_5 | e1pd222 | A: a+b three layers | X: Thioredoxin-like | H: Thioredoxin-like (From Topology) | T: Thioredoxin-like | F: GST_N_5 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A [auth 1] | 3.40.30.10 | Alpha Beta | 3-Layer(aba) Sandwich | Glutaredoxin | Glutaredoxin | CATH (4.3.0) |
A [auth 1] | 1.20.1050.10 | Mainly Alpha | Up-down Bundle | Glutathione S-transferase Yfyf (Class Pi) | Chain A, domain 2 | CATH (4.3.0) |
B [auth 2] | 3.40.30.10 | Alpha Beta | 3-Layer(aba) Sandwich | Glutaredoxin | Glutaredoxin | CATH (4.3.0) |
B [auth 2] | 1.20.1050.10 | Mainly Alpha | Up-down Bundle | Glutathione S-transferase Yfyf (Class Pi) | Chain A, domain 2 | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A [auth 1], B [auth 2] | PF14497 | Glutathione S-transferase, C-terminal domain (GST_C_3) | Glutathione S-transferase, C-terminal domain | This domain is closely related to Pfam:PF00043. | Domain |
A [auth 1], B [auth 2] | PF02798 | Glutathione S-transferase, N-terminal domain (GST_N) | Glutathione S-transferase, N-terminal domain | Function: conjugation of reduced glutathione to a variety of targets. Also included in the alignment, but not GSTs: S-crystallins from squid (similarity to GST previously noted); eukaryotic elongation factors 1-gamma (not known to have GST activity a ... | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage
Chains | Enzyme Name | Description | Catalytic Residues |
---|---|---|---|
prostaglandin-D synthase M-CSA #719 | Hematopoietic prostaglandin-D synthase (H-PGDS) is a homodimer in an asymmetric unit. Each monomer is complexed with one glutathione (GTT or GSH) molecule. H-PGDS is one of two types of prostaglandin-D synthase (PGDS) that catalyses the isomerisation of PGH2 to PGD2. PGD2 is a lipid mediator produced by a variety of cells of the immune system, including Th2 and mast cells, that accelerates allergic and inflammatory responses, regulates body temperature, inhibits platelet aggregation, promotes sleep and numerous other physiological functions. H-PGDS is also a member of the glutathione S-transferase (GST) gene family, a group of enzymes that catalyse the conjugation of GSH to an electrophilic substrate. | Defined by 3 residues: TYR:A-8 [auth 1-8]ARG:A-14 [auth 1-14]TRP:A-104 [auth 1-104] | EC: 5.3.99.2 (PDB Primary Data) |