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Title :   CRYSTAL STRUCTURE OF GLUTATHIONE S-TRANSFERASE (NP_416804.1) FROM ESCHERICHIA COLI K12 AT 1.85 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   11 Nov 07 (Deposition) - 20 Nov 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.85

Chains :   Asym. Unit : A
Biol. Unit 1: A  (2x)

Keywords :   Np_416804. 1, Glutathione S-Transferase, N-Terminal Domain, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Glutathione S-Transferase (Np_416804. 1 From Escherichia Coli K12 At 1. 85 A Resolution
To Be Published
PubMed: search

Molecule 1 - UNCHARACTERIZED GST-LIKE PROTEIN YFCF
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	SPEEDET
	Expression System Strain	:	HK100
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	YFCF, B2301, JW2298
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	83333
	Strain	:	K12

		1
Asymmetric Unit	:	A
Biological Unit 1 (2x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 8)

No.	Name	Count	Type	Full Name
1	ACT	1	Ligand/Ion	ACETATE ION
2	CA	2	Ligand/Ion	CALCIUM ION
3	ETX	2	Ligand/Ion	2-ETHOXYETHANOL
4	MSE	3	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (3, 12)

No.	Name	Count	Type	Full Name
1	ACT	2	Ligand/Ion	ACETATE ION
2	CA	-1	Ligand/Ion	CALCIUM ION
3	ETX	4	Ligand/Ion	2-ETHOXYETHANOL
4	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:95 , GLU A:97 , HOH A:326 , HOH A:351 , HOH A:366	BINDING SITE FOR RESIDUE CA A 215
2	AC2	SOFTWARE	GLU A:89 , HOH A:220 , HOH A:224 , HOH A:305	BINDING SITE FOR RESIDUE CA A 216
3	AC3	SOFTWARE	ALA A:5 , THR A:7 , GLN A:63 , ILE A:64 , ASP A:65	BINDING SITE FOR RESIDUE ACT A 217
4	AC4	SOFTWARE	LEU A:61 , GLN A:63 , HIS A:181 , HOH A:393	BINDING SITE FOR RESIDUE ETX A 218
5	AC5	SOFTWARE	SER A:70 , ARG A:101 , GLN A:104 , MSE A:148 , HIS A:151 , LEU A:152	BINDING SITE FOR RESIDUE ETX A 219

(no "SS Bond" information available for 3BBY)

Asymmetric Unit

No.	Residues
1	Val A:59	-	Pro A:60
2	Pro A:85	-	Pro A:86

(no "SAP(SNP)/Variant" information available for 3BBY)

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GST_NTER	PS50404	Soluble glutathione S-transferase N-terminal domain profile.	YFCF_ECOLI	6-87	1	A:6-87

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GST_NTER	PS50404	Soluble glutathione S-transferase N-terminal domain profile.	YFCF_ECOLI	6-87	2	A:6-87

(no "Exon" information available for 3BBY)

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
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Chain A from PDB  Type:PROTEIN  Length:191
 aligned with YFCF_ECOLI | P77544 from UniProtKB/Swiss-Prot  Length:214

    Alignment length:209
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202         
           YFCF_ECOLI     3 KPAITLWSDAHFFSPYVLSAWVALQEKGLSFHIKTIDLDSGEHLQPTWQGYGQTRRVPLLQIDDFELSESSAIAEYLEDRFAPPTWERIYPLDLENRARARQIQAWLRSDLMPIREERPTDVVFAGAKKAPLTAEGKASAEKLFAMAEHLLVLGQPNLFGEWCIADTDLALMINRLVLHGDEVPERLVDYATFQWQRASVQRFIALSAK 211
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------3bbyA02 A:95-211  [code=1.20.1050.10, no name defined]                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee....hhhhhhhhhhhhhhh...eeeee.------------------...eeee..eeeehhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh.......hhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---GST_NTER  PDB: A:6-87 UniProt: 6-87                                               ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3bby A   3 KPAITLWSDAHFFSPYVLSAWVALQEKGLSFHIKTID------------------RVPLLQIDDFELSESSAIAEYLEDRFAPPTWERIYPLDLENRARARQIQAWLRSDLmPIREERPTDVVFAGAKKAPLTAEGKASAEKLFAmAEHLLVLGQPNLFGEWCIADTDLALmINRLVLHGDEVPERLVDYATFQWQRASVQRFIALSAK 211
                                    12        22        32      |  -         -     |  62        72        82        92       102       112 |     122       132       142     | 152       162       172 |     182       192       202         
                                                               39                 58                                                     114-MSE                           148-MSE                   174-MSE

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 '\|'

(no "SCOP Domain" information available for 3BBY)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

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)

Escherichia coli k12. Organism_taxid: 83333. Strain: k12. (1)

3bbyA02

A:95-211

(no "Pfam Domain" information available for 3BBY)

Asymmetric Unit(hide GO term definitions)

Chain A (YFCF_ECOLI | P77544)

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:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
	GO:0004601	peroxidase activity	Catalysis of the reaction: donor + hydrogen peroxide = oxidized donor + 2 H2O.
	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:0098869	cellular oxidant detoxification	Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
	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:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
	GO:0042542	response to hydrogen peroxide	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 a hydrogen peroxide (H2O2) stimulus.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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		Val A:59 - Pro A:60	[ RasMol ]

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Description

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Ligands, Modified Residues, Ions (4, 8)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

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