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Title :   CRYSTAL STRUCTURE OF MGSTA2-2 IN COMPLEX WITH THE GLUTATHIONE CONJUGATE OF BENZO[A]PYRENE-7(R),8(S)-DIOL-9(S),10(R)-EPOXIDE

Authors :   Y. Gu, B. Xiao, H. L. Wargo, M. H. Bucher, S. V. Singh, X. Ji

Date :   30 Aug 02 (Deposition) - 15 Apr 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym./Biol. Unit : A,B

Keywords :   Gst Detoxification, Crystal Structure, Mgsta2-2, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Gu, B. Xiao, H. L. Wargo, M. H. Bucher, S. V. Singh, X. Ji
Residues 207, 216, And 221 And The Catalytic Activity Of Mgsta1-1 And Mgsta2-2 Toward Benzo[A]Pyrene-(7R, 8S)-Diol-(9S, 10R)-Epoxide
Biochemistry V. 42 917 2003
PubMed-ID: 12549910 | Reference-DOI: 10.1021/BI026778+
(for further references see the PDB file header)

Molecule 1 - GLUTATHIONE S-TRANSFERASE GT41A
	Chains	:	A, B
	EC Number	:	2.5.1.18
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET-11D
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	GST
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Synonym	:	GST CLASS-ALPHA

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 6)

No.	Name	Count	Type	Full Name
1	CSO	2	Mod. Amino Acid	S-HYDROXYCYSTEINE
2	GBX	2	Ligand/Ion	2-AMINO-4-[1-(CARBOXYMETHYL-CARBAMOYL)-2-(9-HYDROXY-7,8-DIOXO-7,8,9,10-TETRAHYDRO-BENZO[DEF]CHRYSEN-10-YLSULFANYL)-ETHYLCARBAMOYL]-BUTYRIC ACID
3	IPA	2	Ligand/Ion	ISOPROPYL ALCOHOL

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:8 , PHE A:9 , LYS A:44 , ASP A:52 , GLN A:53 , VAL A:54 , GLN A:66 , THR A:67 , LEU A:110 , LEU A:207 , ALA A:215 , PHE A:221 , HOH A:695 , HOH A:845 , ASP B:400 , ARG B:430 , HOH B:651	BINDING SITE FOR RESIDUE GBX A 230
2	AC2	SOFTWARE	ASP A:100 , ARG A:130 , HOH A:638 , HOH A:852 , PHE B:309 , LYS B:344 , GLN B:353 , VAL B:354 , PRO B:355 , GLN B:366 , THR B:367 , LEU B:507 , ILE B:512 , ALA B:515 , ARG B:516 , PHE B:521 , HOH B:681 , HOH B:823 , HOH B:833 , HOH B:844	BINDING SITE FOR RESIDUE GBX B 530
3	AC3	SOFTWARE	ASP A:84 , MET A:85	BINDING SITE FOR RESIDUE IPA A 235
4	AC4	SOFTWARE	THR B:376 , ASP B:379	BINDING SITE FOR RESIDUE IPA B 236

(no "SS Bond" information available for 1ML6)

Asymmetric/Biological Unit

No.	Residues
1	Val A:54	-	Pro A:55
2	Val B:354	-	Pro B:355

(no "SAP(SNP)/Variant" information available for 1ML6)

Asymmetric/Biological Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GST_NTER	PS50404	Soluble glutathione S-transferase N-terminal domain profile.	GSTA2_MOUSE	3-83	2	A:2-82 B:302-382
2	GST_CTER	PS50405	Soluble glutathione S-transferase C-terminal domain profile.	GSTA2_MOUSE	85-208	2	A:84-207 B:384-507

(no "Exon" information available for 1ML6)

Asymmetric/Biological 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:220
 aligned with GSTA2_MOUSE | P10648 from UniProtKB/Swiss-Prot  Length:222

    Alignment length:220
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222
          GSTA2_MOUSE     3 GKPVLHYFNARGRMECIRWLLAAAGVEFEEKFIQSPEDLEKLKKDGNLMFDQVPMVEIDGMKLVQTRAILNYIATKYDLYGKDMKERALIDMYTEGILDLTEMIGQLVLCPPDQREAKTALAKDRTKNRYLPAFEKVLKSHGQDYLVGNRLTRVDVHLLELLLYVEELDASLLTPFPLLKAFKSRISSLPNVKKFLHPGSQRKPPLDAKQIEEARKVFKF 222
               SCOP domains d1ml6a2 A:2-79 Class alpha GST                                                d1ml6a1 A:80-221 Class alpha GST                                                                                                               SCOP domains
               CATH domains 1ml6A01 A:2-80,A:190-208 Glutaredoxin                                          1ml6A02 A:81-189  [code=1.20.1050.10, no name defined]                                                       1ml6A01            ------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..hhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhh.........eeee..eeeehhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE GST_NTER  PDB: A:2-82 UniProt: 3-83                                              -GST_CTER  PDB: A:84-207 UniProt: 85-208                                                                                     -------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ml6 A   2 GKPVLHYFNARGRMECIRWLLAAAGVEFEEKFIQSPEDLEKLKKDGNLMFDQVPMVEIDGMKLVQTRAILNYIATKYDLYGKDMKERALIDMYTEGILDLTEMIGQLVLcPPDQREAKTALAKDRTKNRYLPAFEKVLKSHGQDYLVGNRLTRVDVHLLELLLYVEELDASLLTPFPLLKAFKSRISSLPNVKKFLQPGSQRKPPLDAKQIEEARKVFKF 221
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221
                                                                                                                                       111-CSO

Chain B from PDB  Type:PROTEIN  Length:220
 aligned with GSTA2_MOUSE | P10648 from UniProtKB/Swiss-Prot  Length:222

    Alignment length:220
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222
          GSTA2_MOUSE     3 GKPVLHYFNARGRMECIRWLLAAAGVEFEEKFIQSPEDLEKLKKDGNLMFDQVPMVEIDGMKLVQTRAILNYIATKYDLYGKDMKERALIDMYTEGILDLTEMIGQLVLCPPDQREAKTALAKDRTKNRYLPAFEKVLKSHGQDYLVGNRLTRVDVHLLELLLYVEELDASLLTPFPLLKAFKSRISSLPNVKKFLHPGSQRKPPLDAKQIEEARKVFKF 222
               SCOP domains d1ml6b2 B:302-379 Class alpha GST                                             d1ml6b1 B:380-521 Class alpha GST                                                                                                              SCOP domains
               CATH domains 1ml6B01 B:302-380,B:490-508 Glutaredoxin                                       1ml6B02 B:381-489  [code=1.20.1050.10, no name defined]                                                      1ml6B01            ------------- CATH domains
           Pfam domains (1) --GST_N-1ml6B03 B:304-376                                                  --GST_C-1ml6B01 B:379-491                                                                                          ------------------------------ Pfam domains (1)
           Pfam domains (2) --GST_N-1ml6B04 B:304-376                                                  --GST_C-1ml6B02 B:379-491                                                                                          ------------------------------ Pfam domains (2)
         Sec.struct. author ...eeee......hhhhhhhhhhh....eeee..hhhhhhhhhhh.........eeee..eeeehhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE GST_NTER  PDB: B:302-382 UniProt: 3-83                                           -GST_CTER  PDB: B:384-507 UniProt: 85-208                                                                                    -------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ml6 B 302 GKPVLHYFNARGRMECIRWLLAAAGVEFEEKFIQSPEDLEKLKKDGNLMFDQVPMVEIDGMKLVQTRAILNYIATKYDLYGKDMKERALIDMYTEGILDLTEMIGQLVLcPPDQREAKTALAKDRTKNRYLPAFEKVLKSHGQDYLVGNRLTRVDVHLLELLLYVEELDASLLTPFPLLKAFKSRISSLPNVKKFLQPGSQRKPPLDAKQIEEARKVFKF 521
                                   311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521
                                                                                                                                       411-CSO

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	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 '\|'

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Glutaredoxin (620)

Homologous Superfamily: Glutaredoxin (617)

House mouse (Mus musculus) (21)

1a	1ml6A01	A:2-80,A:190-208
1b	1ml6B01	B:302-380,B:490-508

Class: Mainly Alpha (13335)

Architecture: Up-down Bundle (3216)

Topology: Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 (267)

Homologous Superfamily: [code=1.20.1050.10, no name defined] (249)

House mouse (Mus musculus) (17)

2a	1ml6A02	A:81-189
2b	1ml6B02	B:381-489

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: GST_C (118)

Family: GST_C (102)

Mus musculus (Mouse) (5)

1a	GST_C-1ml6B01	B:379-491
1b	GST_C-1ml6B02	B:379-491

Clan: Thioredoxin (367)

Family: GST_N (88)

Mus musculus (Mouse) (5)

2a	GST_N-1ml6B03	B:304-376
2b	GST_N-1ml6B04	B:304-376

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (GSTA2_MOUSE | P10648)

molecular function
	GO:0004364	glutathione transferase activity	Catalysis of the reaction: R-X + glutathione = H-X + R-S-glutathione. R may be an aliphatic, aromatic or heterocyclic group; X may be a sulfate, nitrile or halide group.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0006749	glutathione metabolic process	The chemical reactions and pathways involving glutathione, the tripeptide glutamylcysteinylglycine, which acts as a coenzyme for some enzymes and as an antioxidant in the protection of sulfhydryl groups in enzymes and other proteins; it has a specific role in the reduction of hydrogen peroxide (H2O2) and oxidized ascorbate, and it participates in the gamma-glutamyl cycle.
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
	GO:0035634	response to stilbenoid	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of exposure to a stilbenoid. Stilbenoids are secondary products of heartwood formation in trees that can act as phytoalexins. Stilbenoids are hydroxylated derivatives of stilbene. They belong to the family of phenylpropanoids and share most of their biosynthesis pathway with chalcones.
cellular component
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Val A:54 - Pro A:55	[ RasMol ]
		Val B:354 - Pro B:355	[ RasMol ]

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1f3a	CRYSTAL STRUCTURE OF MGSTA1-1 IN COMPLEX WITH GSH
1f3b	CRYSTAL STRUCTURE OF MGSTA1-1 IN COMPLEX WITH GLUTATHIONE CONJUGATE OF BENZO[A]PYRENE EPOXIDE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 6)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 4)

Exons (0, 0)

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