5AIV - JenaLib

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Title :   COMPLEX OF HUMAN HEMATOPOIETIC PROSTAGANDIN D2 SYNTHASE (HH-PGDS) IN COMPLEX WITH AN ACTIVE SITE INHIBITOR.

Authors :   F. Edfeldt, J. Evenas, M. Lepisto, A. Ward, J. Petersen, L. Wissler, M. R U. Sivars, K. Svensson, M. Perry, I. Feierberg, X. Zhou, T. Hansson, F.

Date :   17 Feb 15 (Deposition) - 03 Jun 15 (Release) - 10 Jun 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.04

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)

Keywords :   Transferase, Prostaglandin D2 Synthase, Pgds Inhibitors, Indole, Focused Screening, Hit Validation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   F. Edfeldt, J. Even, M. Lepisto, A. Ward, J. Petersen, L. Wissler, M. Rohman, U. Sivars, K. Svensson, M. Perry, I. Feierberg, X. H. Zhou, T. Hansson, F. Narjes
Identification Of Indole Inhibitors Of Human Hematopoietic Prostaglandin D2 Synthase (Hh-Pgds).
Bioorg. Med. Chem. Lett. V. 25 2496 2015
PubMed-ID: 25978964 | Reference-DOI: 10.1016/J.BMCL.2015.04.065

Molecule 1 - HEMATOPOIETIC PROSTAGLANDIN D SYNTHASE
	Chains	:	A, B, C, D
	EC Number	:	5.3.99.2, 2.5.1.18
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	HEMATOPOIETIC PROSTAGLANDIN D2 SYNTHASE, H-PGDS, GST CLASS-SI GLUTATHIONE S-TRANSFERASE, GLUTATHIONE-DEPENDENT PGD SYNTHASE, GLUTATHIONE-REQUIRING PROSTAGLANDIN D SYNTHASE, PROSTAGLANDIN-H2 D-ISOMERASE

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 10)

No.	Name	Count	Type	Full Name
1	GSH	4	Ligand/Ion	GLUTATHIONE
2	M1W	4	Ligand/Ion	3-(1H-INDOL-4-YL)-N-(3-METHOXYPROPYL)-1,2,4-OXADIAZOLE-5-CARBOXAMIDE
3	MG	2	Ligand/Ion	MAGNESIUM ION

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	GSH	2	Ligand/Ion	GLUTATHIONE
2	M1W	2	Ligand/Ion	3-(1H-INDOL-4-YL)-N-(3-METHOXYPROPYL)-1,2,4-OXADIAZOLE-5-CARBOXAMIDE
3	MG	-1	Ligand/Ion	MAGNESIUM ION

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	GSH	2	Ligand/Ion	GLUTATHIONE
2	M1W	2	Ligand/Ion	3-(1H-INDOL-4-YL)-N-(3-METHOXYPROPYL)-1,2,4-OXADIAZOLE-5-CARBOXAMIDE
3	MG	-1	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	MET D:11 , GLY D:13 , ARG D:14 , GLN D:36 , ASP D:96 , MET D:99 , TRP D:104 , TYR D:152 , LEU D:199 , GSH D:1201 , HOH D:2007	BINDING SITE FOR RESIDUE M1W D1200
02	AC2	SOFTWARE	GLY C:13 , ARG C:14 , ASP C:96 , MET C:99 , TRP C:104 , TYR C:152 , LEU C:199 , GSH C:1201 , HOH C:2013	BINDING SITE FOR RESIDUE M1W C1200
03	AC3	SOFTWARE	PHE B:9 , MET B:11 , GLY B:13 , ARG B:14 , GLN B:36 , ASP B:96 , MET B:99 , TRP B:104 , TYR B:152 , LEU B:199 , GSH B:1201 , HOH B:2016 , HOH B:2114	BINDING SITE FOR RESIDUE M1W B1200
04	AC4	SOFTWARE	MET A:11 , GLY A:13 , ARG A:14 , GLN A:36 , ASP A:96 , MET A:99 , TRP A:104 , TYR A:152 , LEU A:199	BINDING SITE FOR RESIDUE M1W A1200
05	AC5	SOFTWARE	TYR A:8 , ARG A:14 , TRP A:39 , LYS A:43 , LYS A:50 , ILE A:51 , GLN A:63 , SER A:64 , HOH A:2014 , HOH A:2035 , HOH A:2040 , HOH A:2124 , ASP B:97	BINDING SITE FOR RESIDUE GSH A1201
06	AC6	SOFTWARE	ASP A:97 , TYR B:8 , ARG B:14 , TRP B:39 , LYS B:43 , LYS B:50 , ILE B:51 , PRO B:52 , GLN B:63 , SER B:64 , M1W B:1200 , HOH B:2019 , HOH B:2037 , HOH B:2114 , HOH B:2116	BINDING SITE FOR RESIDUE GSH B1201
07	AC7	SOFTWARE	TYR C:8 , ARG C:14 , TRP C:39 , LYS C:43 , LYS C:50 , ILE C:51 , PRO C:52 , GLN C:63 , SER C:64 , M1W C:1200 , HOH C:2016 , HOH C:2036 , HOH C:2043 , HOH C:2110 , ASP D:97	BINDING SITE FOR RESIDUE GSH C1201
08	AC8	SOFTWARE	ASP C:97 , TYR D:8 , ARG D:14 , TRP D:39 , LYS D:43 , LYS D:50 , ILE D:51 , GLN D:63 , SER D:64 , M1W D:1200 , HOH D:2020 , HOH D:2021 , HOH D:2025	BINDING SITE FOR RESIDUE GSH D1201
09	AC9	SOFTWARE	HOH C:2067 , HOH C:2069 , HOH C:2071 , HOH C:2074 , HOH D:2038 , HOH D:2039	BINDING SITE FOR RESIDUE MG C1202
10	BC1	SOFTWARE	HOH A:2065 , HOH A:2071 , HOH A:2072 , HOH B:2058 , HOH B:2059 , HOH B:2061	BINDING SITE FOR RESIDUE MG A1202

(no "SS Bond" information available for 5AIV)

Asymmetric Unit

No.	Residues
1	Ile A:51	-	Pro A:52
2	Ile B:51	-	Pro B:52
3	Ile C:51	-	Pro C:52
4	Ile D:51	-	Pro D:52

(no "SAP(SNP)/Variant" information available for 5AIV)

(no "PROSITE Motif" information available for 5AIV)

(no "Exon" information available for 5AIV)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:198
                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee.....hhhhhhhhhhh....eeeeehhhhhhhhh.........eeee..eeeehhhhhhhhhhh.hhhhh.hhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5aiv A   2 PNYKLTYFNMRGRAEIIRYIFAYLDIQYEDHRIEQADWPEIKSTLPFGKIPILEVDGLTLHQSLAIARYLTENTDLAGNTEMEQCHVDAIVDTLDDFMSCFPWAEKKQDVKEQMFNELLTYNAPHLMQDLDTYLGGREWLIGNSVTWADFYWEICSTTLLVFKPDLLDNHPRLVTLRKKVQAIPAVANWIKRRPQTKL 199
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191

Chain B from PDB  Type:PROTEIN  Length:198
                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhhh....eeeeehhhhhhhhhh........eeee..eeeehhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5aiv B   2 PNYKLTYFNMRGRAEIIRYIFAYLDIQYEDHRIEQADWPEIKSTLPFGKIPILEVDGLTLHQSLAIARYLTENTDLAGNTEMEQCHVDAIVDTLDDFMSCFPWAEKKQDVKEQMFNELLTYNAPHLMQDLDTYLGGREWLIGNSVTWADFYWEICSTTLLVFKPDLLDNHPRLVTLRKKVQAIPAVANWIKRRPQTKL 199
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191

Chain C from PDB  Type:PROTEIN  Length:198
                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhhhh..eeeeeehhhhhhhhhh........eeee..eeeehhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5aiv C   2 PNYKLTYFNMRGRAEIIRYIFAYLDIQYEDHRIEQADWPEIKSTLPFGKIPILEVDGLTLHQSLAIARYLTENTDLAGNTEMEQCHVDAIVDTLDDFMSCFPWAEKKQDVKEQMFNELLTYNAPHLMQDLDTYLGGREWLIGNSVTWADFYWEICSTTLLVFKPDLLDNHPRLVTLRKKVQAIPAVANWIKRRPQTKL 199
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191

Chain D from PDB  Type:PROTEIN  Length:198
                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhhh....eeeee...hhhhhhh........eeee..eeeehhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5aiv D   2 PNYKLTYFNMRGRAEIIRYIFAYLDIQYEDHRIEQADWPEIKSTLPFGKIPILEVDGLTLHQSLAIARYLTENTDLAGNTEMEQCHVDAIVDTLDDFMSCFPWAEKKQDVKEQMFNELLTYNAPHLMQDLDTYLGGREWLIGNSVTWADFYWEICSTTLLVFKPDLLDNHPRLVTLRKKVQAIPAVANWIKRRPQTKL 199
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191

Legend:		→ Mismatch	(orange background)
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	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

(no "SCOP Domain" information available for 5AIV)

(no "CATH Domain" information available for 5AIV)

(no "Pfam Domain" information available for 5AIV)

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	Cis Peptide Bonds
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		Ile D:51 - Pro D:52	[ RasMol ]

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5ais	COMPLEX OF HUMAN HEMATOPOIETIC PROSTAGANDIN D2 SYNTHASE (HH-PGDS) IN COMPLEX WITH AN ACTIVE SITE INHIBITOR.

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 10)

Sites (10, 10)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

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Exons (0, 0)

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Gene Ontology (21, 21)

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