1TU8 - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   STRUCTURE OF ONCHOVERCA VOLVULUS PI-CLASS GLUTATHIONE S-TRANSFERASE WITH ITS KOMPETITIVE INHIBITOR S-HEXYL-GSH

Authors :   M. Perbandt

Date :   24 Jun 04 (Deposition) - 11 Jan 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

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

Keywords :   Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Perbandt, J. Hoppner, C. Betzel, R. D. Walter, E. Liebau
Structure Of The Major Cytosolic Glutathione S-Transferase From The Parasitic Nematode Onchocerca Volvulus
J. Biol. Chem. V. 280 12630 2005
PubMed-ID: 15640152 | Reference-DOI: 10.1074/JBC.M413551200
(for further references see the PDB file header)

Molecule 1 - GLUTATHIONE S-TRANSFERASE 2
	Chains	:	A, B, C, D
	EC Number	:	2.5.1.18
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PLYSS
	Expression System Strain	:	BL21 DE3
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	GST2
	Organism Scientific	:	ONCHOCERCA VOLVULUS
	Organism Taxid	:	6282
	Synonym	:	GLUTATHIONE S-TRANSFERASE, GST CLASS-PI

		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 (1, 4)

No.	Name	Count	Type	Full Name
1	GTX	4	Ligand/Ion	S-HEXYLGLUTATHIONE

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	GTX	2	Ligand/Ion	S-HEXYLGLUTATHIONE

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	GTX	2	Ligand/Ion	S-HEXYLGLUTATHIONE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:7 , PHE A:8 , LEU A:13 , PHE A:38 , LYS A:42 , GLN A:49 , LEU A:50 , PRO A:51 , GLN A:62 , SER A:63 , ARG A:95 , TYR A:106 , HOH A:2004 , HOH A:2111 , HOH A:2127 , HOH A:2183 , ASP B:96 , HOH B:2078	BINDING SITE FOR RESIDUE GTX A 2001
2	AC2	SOFTWARE	ASP A:96 , HOH A:2124 , TYR B:7 , PHE B:8 , ILE B:10 , LEU B:13 , PHE B:38 , GLN B:49 , LEU B:50 , PRO B:51 , GLN B:62 , SER B:63 , ARG B:95 , TYR B:106 , HOH B:2003 , HOH B:2123 , HOH B:2133 , HOH B:2175	BINDING SITE FOR RESIDUE GTX B 2002
3	AC3	SOFTWARE	ASP C:96 , TYR D:7 , PHE D:8 , ILE D:10 , LEU D:13 , PHE D:38 , LYS D:42 , GLN D:49 , LEU D:50 , PRO D:51 , GLN D:62 , SER D:63 , ARG D:95 , TYR D:106 , HOH D:2095 , HOH D:2139 , HOH D:2162 , HOH D:2181	BINDING SITE FOR RESIDUE GTX D 2003
4	AC4	SOFTWARE	TYR C:7 , PHE C:8 , LEU C:13 , PHE C:38 , LYS C:42 , GLN C:49 , LEU C:50 , PRO C:51 , GLN C:62 , SER C:63 , ARG C:95 , TYR C:106 , HOH C:2009 , HOH C:2129 , HOH C:2142 , HOH C:2154 , ASP D:96	BINDING SITE FOR RESIDUE GTX C 2004

(no "SS Bond" information available for 1TU8)

Asymmetric Unit

No.	Residues
1	Leu A:50	-	Pro A:51
2	Leu B:50	-	Pro B:51
3	Leu C:50	-	Pro C:51
4	Leu D:50	-	Pro D:51

(no "SAP(SNP)/Variant" information available for 1TU8)

Asymmetric Unit (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GST_NTER	PS50404	Soluble glutathione S-transferase N-terminal domain profile.	GSTP_ONCVO	1-78	4	A:1-78 B:1-78 C:1-78 D:1-78
2	GST_CTER	PS50405	Soluble glutathione S-transferase C-terminal domain profile.	GSTP_ONCVO	80-200	4	A:80-200 B:80-200 C:80-200 D:80-200

Biological Unit 1 (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.	GSTP_ONCVO	1-78	2	A:1-78 B:1-78 - -
2	GST_CTER	PS50405	Soluble glutathione S-transferase C-terminal domain profile.	GSTP_ONCVO	80-200	2	A:80-200 B:80-200 - -

Biological Unit 2 (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.	GSTP_ONCVO	1-78	2	- - C:1-78 D:1-78
2	GST_CTER	PS50405	Soluble glutathione S-transferase C-terminal domain profile.	GSTP_ONCVO	80-200	2	- - C:80-200 D:80-200

(no "Exon" information available for 1TU8)

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:208
 aligned with GSTP_ONCVO | P46427 from UniProtKB/Swiss-Prot  Length:208

    Alignment length:208
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200        
           GSTP_ONCVO     1 MSYKLTYFSIRGLAEPIRLFLVDQDIKFIDDRIAKDDFSSIKSQFQFGQLPCLYDGDQQIVQSGAILRHLARKYNLNGENEMETTYIDMFCEGVRDLHVKYTRMIYMAYETEKDPYIKSILPGELAKFEKLLATRGNGRNLILGDKISYADYALFEELDVHQILDPHCLDKFPLLKAFHQRMKDRPKLKEYCEKRDAAKVPVNGNGKQ 208
               SCOP domains d1tu8a2 A:1-77 Class pi GST                                                  d1tu8a1 A:78-208 Class pi GST                                                                                                       SCOP domains
               CATH domains 1tu8A01 A:1-76,A:186-208 Glutaredoxin                                       1tu8A02 A:77-185  [code=1.20.1050.10, no name defined]                                                       1tu8A01 Glutaredoxin    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhhh....eeeeehhhhhhhhhhhh......eeee..eeeehhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE GST_NTER  PDB: A:1-78 UniProt: 1-78                                           -GST_CTER  PDB: A:80-200 UniProt: 80-200                                                                                  -------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tu8 A   1 MSYKLTYFSIRGLAEPIRLFLVDQDIKFIDDRIAKDDFSSIKSQFQFGQLPCLYDGDQQIVQSGAILRHLARKYNLNGENEMETTYIDMFCEGVRDLHVKYTRMIYMAYETEKDPYIKSILPGELAKFEKLLATRGNGRNLILGDKISYADYALFEELDVHQILDPHCLDKFPLLKVFHQRMKDRPKLKEYCEKRDAAKVPVNGNGKQ 208
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200

Chain B from PDB  Type:PROTEIN  Length:208
 aligned with GSTP_ONCVO | P46427 from UniProtKB/Swiss-Prot  Length:208

    Alignment length:208
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200        
           GSTP_ONCVO     1 MSYKLTYFSIRGLAEPIRLFLVDQDIKFIDDRIAKDDFSSIKSQFQFGQLPCLYDGDQQIVQSGAILRHLARKYNLNGENEMETTYIDMFCEGVRDLHVKYTRMIYMAYETEKDPYIKSILPGELAKFEKLLATRGNGRNLILGDKISYADYALFEELDVHQILDPHCLDKFPLLKAFHQRMKDRPKLKEYCEKRDAAKVPVNGNGKQ 208
               SCOP domains d1tu8b2 B:1-77 Class pi GST                                                  d1tu8b1 B:78-208 Class pi GST                                                                                                       SCOP domains
               CATH domains 1tu8B01 B:1-76,B:186-208 Glutaredoxin                                       1tu8B02 B:77-185  [code=1.20.1050.10, no name defined]                                                       1tu8B01 Glutaredoxin    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhhhh...eeeeehhhhhhhhhhhh......eeee..eeeehhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE GST_NTER  PDB: B:1-78 UniProt: 1-78                                           -GST_CTER  PDB: B:80-200 UniProt: 80-200                                                                                  -------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tu8 B   1 MSYKLTYFSIRGLAEPIRLFLVDQDIKFIDDRIAKDDFSSIKSQFQFGQLPCLYDGDQQIVQSGAILRHLARKYNLNGENEMETTYIDMFCEGVRDLHVKYTRMIYMAYETEKDPYIKSILPGELAKFEKLLATRGNGRNLILGDKISYADYALFEELDVHQILDPHCLDKFPLLKVFHQRMKDRPKLKEYCEKRDAAKVPVNGNGKQ 208
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200

Chain C from PDB  Type:PROTEIN  Length:208
 aligned with GSTP_ONCVO | P46427 from UniProtKB/Swiss-Prot  Length:208

    Alignment length:208
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200        
           GSTP_ONCVO     1 MSYKLTYFSIRGLAEPIRLFLVDQDIKFIDDRIAKDDFSSIKSQFQFGQLPCLYDGDQQIVQSGAILRHLARKYNLNGENEMETTYIDMFCEGVRDLHVKYTRMIYMAYETEKDPYIKSILPGELAKFEKLLATRGNGRNLILGDKISYADYALFEELDVHQILDPHCLDKFPLLKAFHQRMKDRPKLKEYCEKRDAAKVPVNGNGKQ 208
               SCOP domains d1tu8c2 C:1-77 Class pi GST                                                  d1tu8c1 C:78-208 Class pi GST                                                                                                       SCOP domains
               CATH domains 1tu8C01 C:1-76,C:186-208 Glutaredoxin                                       1tu8C02 C:77-185  [code=1.20.1050.10, no name defined]                                                       1tu8C01 Glutaredoxin    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhhh....eeeeehhhhhhhhhhhh......eeee..eeeehhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE GST_NTER  PDB: C:1-78 UniProt: 1-78                                           -GST_CTER  PDB: C:80-200 UniProt: 80-200                                                                                  -------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tu8 C   1 MSYKLTYFSIRGLAEPIRLFLVDQDIKFIDDRIAKDDFSSIKSQFQFGQLPCLYDGDQQIVQSGAILRHLARKYNLNGENEMETTYIDMFCEGVRDLHVKYTRMIYMAYETEKDPYIKSILPGELAKFEKLLATRGNGRNLILGDKISYADYALFEELDVHQILDPHCLDKFPLLKVFHQRMKDRPKLKEYCEKRDAAKVPVNGNGKQ 208
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200

Chain D from PDB  Type:PROTEIN  Length:208
 aligned with GSTP_ONCVO | P46427 from UniProtKB/Swiss-Prot  Length:208

    Alignment length:208
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200        
           GSTP_ONCVO     1 MSYKLTYFSIRGLAEPIRLFLVDQDIKFIDDRIAKDDFSSIKSQFQFGQLPCLYDGDQQIVQSGAILRHLARKYNLNGENEMETTYIDMFCEGVRDLHVKYTRMIYMAYETEKDPYIKSILPGELAKFEKLLATRGNGRNLILGDKISYADYALFEELDVHQILDPHCLDKFPLLKAFHQRMKDRPKLKEYCEKRDAAKVPVNGNGKQ 208
               SCOP domains d1tu8d2 D:1-77 Class pi GST                                                  d1tu8d1 D:78-208 Class pi GST                                                                                                       SCOP domains
               CATH domains 1tu8D01 D:1-76,D:186-208 Glutaredoxin                                       1tu8D02 D:77-185  [code=1.20.1050.10, no name defined]                                                       1tu8D01 Glutaredoxin    CATH domains
           Pfam domains (1) --GST_N-1tu8D05 D:3-72                                                  ---------------------GST_C-1tu8D01 D:94-186                                                                       ---------------------- Pfam domains (1)
           Pfam domains (2) --GST_N-1tu8D06 D:3-72                                                  ---------------------GST_C-1tu8D02 D:94-186                                                                       ---------------------- Pfam domains (2)
           Pfam domains (3) --GST_N-1tu8D07 D:3-72                                                  ---------------------GST_C-1tu8D03 D:94-186                                                                       ---------------------- Pfam domains (3)
           Pfam domains (4) --GST_N-1tu8D08 D:3-72                                                  ---------------------GST_C-1tu8D04 D:94-186                                                                       ---------------------- Pfam domains (4)
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhhh....eeeeehhhhh..hhhhh......eeee..eeeehhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE GST_NTER  PDB: D:1-78 UniProt: 1-78                                           -GST_CTER  PDB: D:80-200 UniProt: 80-200                                                                                  -------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tu8 D   1 MSYKLTYFSIRGLAEPIRLFLVDQDIKFIDDRIAKDDFSSIKSQFQFGQLPCLYDGDQQIVQSGAILRHLARKYNLNGENEMETTYIDMFCEGVRDLHVKYTRMIYMAYETEKDPYIKSILPGELAKFEKLLATRGNGRNLILGDKISYADYALFEELDVHQILDPHCLDKFPLLKVFHQRMKDRPKLKEYCEKRDAAKVPVNGNGKQ 208
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200

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 Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: GST C-terminal domain-like (353)

Superfamily: GST C-terminal domain-like (353)

Family: Glutathione S-transferase (GST), C-terminal domain (263)

Protein domain: Class pi GST (65)

Onchocerca volvulus [TaxId: 6282] (2)

1a	d1tu8a1	A:78-208
1b	d1tu8b1	B:78-208
1c	d1tu8c1	C:78-208
1d	d1tu8d1	D:78-208

Class: Alpha and beta proteins (a/b) (23833)

Fold: Thioredoxin fold (994)

Superfamily: Thioredoxin-like (992)

Family: Glutathione S-transferase (GST), N-terminal domain (216)

Protein domain: Class pi GST (61)

Onchocerca volvulus [TaxId: 6282] (2)

2a	d1tu8a2	A:1-77
2b	d1tu8b2	B:1-77
2c	d1tu8c2	C:1-77
2d	d1tu8d2	D:1-77

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

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

Topology: Glutaredoxin (620)

Homologous Superfamily: Glutaredoxin (617)

Onchocerca volvulus. Organism_taxid: 6282. (3)

1a	1tu8A01	A:1-76,A:186-208
1b	1tu8B01	B:1-76,B:186-208
1c	1tu8C01	C:1-76,C:186-208
1d	1tu8D01	D:1-76,D:186-208

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)

Onchocerca volvulus. Organism_taxid: 6282. (2)

2a	1tu8A02	A:77-185
2b	1tu8B02	B:77-185
2c	1tu8C02	C:77-185
2d	1tu8D02	D:77-185

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: GST_C (118)

Family: GST_C (102)

Onchocerca volvulus (2)

1a	GST_C-1tu8D01	D:94-186
1b	GST_C-1tu8D02	D:94-186
1c	GST_C-1tu8D03	D:94-186
1d	GST_C-1tu8D04	D:94-186

Clan: Thioredoxin (367)

Family: GST_N (88)

Onchocerca volvulus (2)

2a	GST_N-1tu8D05	D:3-72
2b	GST_N-1tu8D06	D:3-72
2c	GST_N-1tu8D07	D:3-72
2d	GST_N-1tu8D08	D:3-72

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (GSTP_ONCVO | P46427)

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: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.

Asymmetric Unit
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	1tu8
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	GSTP_ONCVO \| P46427	:	1tu7

1tu7	THE SAME PROTEIN WITH GLUTATHIONE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 8)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (2, 8)

CATH Domains (2, 8)

Pfam Domains (2, 8)

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