1GXF - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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Title :   CRYSTAL STRUCTURE OF TRYPANOSOMA CRUZI TRYPANOTHIONE REDUCTASE IN COMPLEX WITH THE INHIBITOR QUINACRINE MUSTARD

Authors :   C. S. Bond, M. R. Peterson, T. J. Vickers, A. H. Fairlamb, W. N. Hunter

Date :   04 Apr 02 (Deposition) - 06 May 04 (Release) - 16 Jun 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.70

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

Keywords :   Oxidoreductase, Trypanothione Reductase, Fad Dependent, Disulphide Oxidoreductase, Quinacrine Mustard, Inhibitor, Redox-Active Center, Flavoprotein, Fad, Nadp (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Saravanamuthu, T. J. Vickers, C. S. Bond, M. R. Peterson, W. N. Hunter, A. H. Fairlamb
Two Interacting Binding Sites For Quinacrine Derivatives In The Active Site Of Trypanothione Reductase: A Template For Drug Design
J. Biol. Chem. V. 279 29493 2004
PubMed-ID: 15102853 | Reference-DOI: 10.1074/JBC.M403187200

Molecule 1 - TRYPANOTHIONE REDUCTASE (OXIDIZED FORM)
	Chains	:	A, B
	EC Number	:	1.6.4.8
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Scientific	:	TRYPANOSOMA CRUZI
	Organism Taxid	:	5693
	Other Details	:	COVALENTLY LABELLED WITH QUINACRINE MUSTARD
	Strain	:	BRAZILIAN SILVIO STRAIN CLONE X10/1
	Synonym	:	N(1), N(8)-BIS(GLUTATHIONYL)SPERMIDINE REDUCTASE

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 7)

No.	Name	Count	Type	Full Name
1	FAD	2	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
2	MAE	1	Ligand/Ion	MALEIC ACID
3	QUM	4	Ligand/Ion	QUINACRINE MUSTARD

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ILE A:11 , GLY A:12 , GLY A:14 , SER A:15 , GLY A:16 , ASP A:36 , VAL A:37 , SER A:47 , ALA A:48 , GLY A:51 , THR A:52 , CYS A:53 , VAL A:56 , CYS A:58 , LYS A:61 , GLY A:126 , GLY A:128 , ALA A:160 , SER A:161 , GLY A:162 , ARG A:288 , ARG A:291 , GLY A:326 , ASP A:327 , MET A:333 , LEU A:334 , THR A:335 , PRO A:336 , HOH A:2022 , HOH A:2028 , HIS B:461	BINDING SITE FOR RESIDUE FAD A1492
2	AC2	SOFTWARE	TYR A:222 , ARG A:223 , ILE A:286	BINDING SITE FOR RESIDUE MAE A1500
3	AC3	SOFTWARE	LEU A:18 , GLU A:19 , TRP A:22 , SER A:110 , TYR A:111 , GLU A:113 , MET A:114 , ASP A:117 , QUM A:1502	BINDING SITE FOR RESIDUE QUM A1501
4	AC4	SOFTWARE	GLU A:19 , CYS A:53 , SER A:110 , TYR A:111 , ILE A:339 , QUM A:1501 , HIS B:461	BINDING SITE FOR RESIDUE QUM A1502
5	AC5	SOFTWARE	HIS A:461 , PRO A:462 , ILE B:11 , GLY B:12 , GLY B:14 , SER B:15 , GLY B:16 , ILE B:35 , ASP B:36 , VAL B:37 , SER B:47 , ALA B:48 , GLY B:51 , THR B:52 , VAL B:56 , GLY B:57 , CYS B:58 , LYS B:61 , GLY B:126 , GLY B:128 , ALA B:160 , SER B:161 , GLY B:162 , ARG B:288 , ARG B:291 , GLY B:326 , ASP B:327 , MET B:333 , LEU B:334 , THR B:335 , PRO B:336 , HOH B:2025	BINDING SITE FOR RESIDUE FAD B1492
6	AC6	SOFTWARE	LEU B:18 , GLU B:19 , TRP B:22 , TYR B:111 , GLU B:113 , MET B:114 , ASP B:117 , QUM B:1502	BINDING SITE FOR RESIDUE QUM B1501
7	AC7	SOFTWARE	HIS A:461 , GLU B:19 , CYS B:53 , SER B:110 , TYR B:111 , ILE B:339 , QUM B:1501	BINDING SITE FOR RESIDUE QUM B1502

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

Asymmetric/Biological Unit

No.	Residues
1	Pro A:43	-	Pro A:44
2	Ile A:369	-	Pro A:370
3	His A:461	-	Pro A:462
4	Pro B:43	-	Pro B:44
5	Ile B:369	-	Pro B:370
6	His B:461	-	Pro B:462

Asymmetric/Biological Unit (5, 10)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_TYTR_TRYCR_001 *	K	95	N	TYTR_TRYCR	---	---	A/B	N	95	N
2	UniProt	VAR_TYTR_TRYCR_002 *	E	140	A	TYTR_TRYCR	---	---	A/B	E	140	A
3	UniProt	VAR_TYTR_TRYCR_003 *	N	156	H	TYTR_TRYCR	---	---	A/B	H	156	H
4	UniProt	VAR_TYTR_TRYCR_004 *	N	353	T	TYTR_TRYCR	---	---	A/B	T	353	T
5	UniProt	VAR_TYTR_TRYCR_005 *	V	441	I	TYTR_TRYCR	---	---	A/B	I	441	I
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PYRIDINE_REDOX_1	PS00076	Pyridine nucleotide-disulphide oxidoreductases class-I active site.	TYTR_TRYCR	50-60	2	A:50-60 B:50-60

(no "Exon" information available for 1GXF)

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:485
 aligned with TYTR_TRYCR | P28593 from UniProtKB/Swiss-Prot  Length:492

    Alignment length:485
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483     
           TYTR_TRYCR     4 KIFDLVVIGAGSGGLEAAWNAATLYKKRVAVIDVQMVHGPPFFSALGGTCVNVGCVPKKLMVTGAQYMEHLRESAGFGWEFDRTTLRAEWKKLIAVKDEAVLNINKSYEEMFRDTEGLEFFLGWGSLESKNVVNVRESADPASAVKERLETENILLASGSWPHMPNIPGIEHCISSNEAFYLPEPPRRVLTVGGGFISVEFAGIFNAYKPKDGQVTLCYRGEMILRGFDHTLREELTKQLTANGIQILTKENPAKVELNADGSKSVTFESGKKMDFDLVMMAIGRSPRTKDLQLQNAGVMIKNGGVQVDEYSRTNVSNIYAIGDVTNRVMLTPVAINEAAALVDTVFGTNPRKTDHTRVASAVFSIPPIGTCGLIEEVASKRYEVVAVYLSSFTPLMHNISGSKYKTFVAKIITNHSDGTVLGVHLLGDNAPEIIQGVGICLKLNAKISDFYNTIGVHPTSAEELCSMRTPSYYYVKGEKMEKPS 488
               SCOP domains d1gxfa1 A:4-169,A:287-357 Trypanothione reductase                                                                                                                     d1gxfa2 A:170-286 Trypanothione reductase                                                                            d1gxfa1 A:4-169,A:287-357 Trypanothione reductase                      d1gxfa3 A:358-488 Trypanothione reductase                                                                                           SCOP domains
               CATH domains 1gxfA01 A:4-165,A:287-360  [code=3.50.50.60, no name defined]                                                                                                     1gxfA02 A:166-286  [code=3.50.50.60, no name defined]                                                                    1gxfA01 A:4-165,A:287-360  [code=3.50.50.60, no name defined]             1gxfA03 A:361-472  [code=3.30.390.30, no name defined]                                                          ---------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee..hhhhhhhhhhhhhhh...eeeee.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee.hhhhheehhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.eeeeee..eeeee........eeeeee..eeee...eee......hhhhh.hhhhhh.......eeeee..hhhhhhhhhhhhhh.....eeeeee.........hhhhhhhhhhhhhh..eeeee...eeeeee.....eeeee....eeee.eeee...eee.hhhhhhhhhh....................eee.hhhhh...hhhhhhhhhhhhhhhhhh............eee.....eeeee.hhhhhhhhh.eeeeeeeee.hhhhhhhh.....eeeeeeee.....eeeeeee..hhhhhhhhhhhhh....hhhhhhh.......hhhhhhhh....eeee..eee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------N--------------------------------------------A---------------H----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T---------------------------------------------------------------------------------------I----------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------PYRIDINE_RE-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gxf A   4 KIFDLVVIGAGSGGLEAAWNAATLYKKRVAVIDVQMVHGPPFFSALGGTCVNVGCVPKKLMVTGAQYMEHLRESAGFGWEFDRTTLRAEWKNLIAVKDEAVLNINKSYDEMFRDTEGLEFFLGWGSLESKNVVNVRESADPASAVKERLETEHILLASGSWPHMPNIPGIEHCISSNEAFYLPEPPRRVLTVGGGFISVEFAGIFNAYKPKDGQVTLCYRGEMILRGFDHTLREELTKQLTANGIQILTKENPAKVELNADGSKSVTFESGKKMDFDLVMMAIGRSPRTKDLQLQNAGVMIKNGGVQVDEYSRTNVSNIYAIGDVTNRVMLTPVAINEAAALVDTVFGTTPRKTDHTRVASAVFSIPPIGTCGLIEEVASKRYEVVAVYLSSFTPLMHKVSGSKYKTFVAKIITNHSDGTVLGVHLLGDNAPEIIQGIGICLKLNAKISDFYNTIGVHPTSAEELCSMRTPSYYYVKGEKMEKPS 488
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483

Chain B from PDB  Type:PROTEIN  Length:484
 aligned with TYTR_TRYCR | P28593 from UniProtKB/Swiss-Prot  Length:492

    Alignment length:484
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484    
           TYTR_TRYCR     5 IFDLVVIGAGSGGLEAAWNAATLYKKRVAVIDVQMVHGPPFFSALGGTCVNVGCVPKKLMVTGAQYMEHLRESAGFGWEFDRTTLRAEWKKLIAVKDEAVLNINKSYEEMFRDTEGLEFFLGWGSLESKNVVNVRESADPASAVKERLETENILLASGSWPHMPNIPGIEHCISSNEAFYLPEPPRRVLTVGGGFISVEFAGIFNAYKPKDGQVTLCYRGEMILRGFDHTLREELTKQLTANGIQILTKENPAKVELNADGSKSVTFESGKKMDFDLVMMAIGRSPRTKDLQLQNAGVMIKNGGVQVDEYSRTNVSNIYAIGDVTNRVMLTPVAINEAAALVDTVFGTNPRKTDHTRVASAVFSIPPIGTCGLIEEVASKRYEVVAVYLSSFTPLMHNISGSKYKTFVAKIITNHSDGTVLGVHLLGDNAPEIIQGVGICLKLNAKISDFYNTIGVHPTSAEELCSMRTPSYYYVKGEKMEKPS 488
               SCOP domains d1gxfb1 B:5-169,B:287-357 Trypanothione reductase                                                                                                                    d1gxfb2 B:170-286 Trypanothione reductase                                                                            d1gxfb1 B:5-169,B:287-357 Trypanothione reductase                      d1gxfb3 B:358-488 Trypanothione reductase                                                                                           SCOP domains
               CATH domains 1gxfB01 B:5-165,B:287-360  [code=3.50.50.60, no name defined]                                                                                                    1gxfB02 B:166-286  [code=3.50.50.60, no name defined]                                                                    1gxfB01 B:5-165,B:287-360  [code=3.50.50.60, no name defined]             1gxfB03 B:361-472  [code=3.30.390.30, no name defined]                                                          ---------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..hhhhhhhhhhhhhhh...eeeee.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee.hhhhheehhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.eeeeee..eeeee........eeeeeeeeeeee...eee......hhhhh.hhhhhh.......eeeee..hhhhhhhhhhhhhh.....eeeeee.........hhhhhhhhhhhhhhh.eeeee...eeeeee.....eeeee....eeee.eeee...eee.hhhhhhhhhh....................eee.hhhhh...hhhhhhhhhhhhhhhhhh............eee.....eeeee.hhhhhhhhh.eeeeeeeee.hhhhhhhh.....eeeeeeee.....eeeeeee..hhhhhhhhhhhhhhh..hhhhhhh.......hhhhhhh.....eeee..eee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------N--------------------------------------------A---------------H----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T---------------------------------------------------------------------------------------I----------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------PYRIDINE_RE-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gxf B   5 IFDLVVIGAGSGGLEAAWNAATLYKKRVAVIDVQMVHGPPFFSALGGTCVNVGCVPKKLMVTGAQYMEHLRESAGFGWEFDRTTLRAEWKNLIAVKDEAVLNINKSYDEMFRDTEGLEFFLGWGSLESKNVVNVRESADPASAVKERLETEHILLASGSWPHMPNIPGIEHCISSNEAFYLPEPPRRVLTVGGGFISVEFAGIFNAYKPKDGQVTLCYRGEMILRGFDHTLREELTKQLTANGIQILTKENPAKVELNADGSKSVTFESGKKMDFDLVMMAIGRSPRTKDLQLQNAGVMIKNGGVQVDEYSRTNVSNIYAIGDVTNRVMLTPVAINEAAALVDTVFGTTPRKTDHTRVASAVFSIPPIGTCGLIEEVASKRYEVVAVYLSSFTPLMHKVSGSKYKTFVAKIITNHSDGTVLGVHLLGDNAPEIIQGIGICLKLNAKISDFYNTIGVHPTSAEELCSMRTPSYYYVKGEKMEKPS 488
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484

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: 2-Layer Sandwich (8480)

Topology: Enolase-like; domain 1 (252)

Homologous Superfamily: [code=3.30.390.30, no name defined] (99)

Trypanosoma cruzi. Organism_taxid: 5693. Strain: brazilian silvio strain clone x10/1. (1)

1a	1gxfA03	A:361-472
1b	1gxfB03	B:361-472

Architecture: 3-Layer(bba) Sandwich (528)

Topology: FAD/NAD(P)-binding domain (373)

Homologous Superfamily: [code=3.50.50.60, no name defined] (373)

Trypanosoma cruzi. Organism_taxid: 5693. Strain: brazilian silvio strain clone x10/1. (1)

2a	1gxfB01	B:5-165,B:287-360
2b	1gxfA01	A:4-165,A:287-360
2c	1gxfA02	A:166-286
2d	1gxfB02	B:166-286

(no "Pfam Domain" information available for 1GXF)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (TYTR_TRYCR | P28593)

molecular function
	GO:0015036	disulfide oxidoreductase activity	Catalysis of the reaction: substrate with reduced sulfide groups = substrate with oxidized disulfide bonds.
	GO:0050660	flavin adenine dinucleotide binding	Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
	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:0016668	oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor	Catalysis of an oxidation-reduction (redox) reaction in which a sulfur-containing group acts as a hydrogen or electron donor and reduces NAD or NADP.
	GO:0015042	trypanothione-disulfide reductase activity	Catalysis of the reaction: NADP+ + trypanothione = NADPH + H+ + trypanothione disulfide.
biological process
	GO:0045454	cell redox homeostasis	Any process that maintains the redox environment of a cell or compartment within a cell.
	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.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		His A:461 - Pro A:462	[ RasMol ]
		His B:461 - Pro B:462	[ RasMol ]
		Ile A:369 - Pro A:370	[ RasMol ]
		Ile B:369 - Pro B:370	[ RasMol ]
		Pro A:43 - Pro A:44	[ RasMol ]
		Pro B:43 - Pro B:44	[ RasMol ]

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	1gxf
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	1.6.4.8
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	TYTR_TRYCR \| P28593	:	1aog 1bzl 1nda

1aog	TRYPANOSOMA CRUZI TRYPANOTHIONE REDUCTASE (OXIDIZED FORM)
1nda	TRYPANOTHIONE OXIDOREDUCTASE (OXIDIZED)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 7)

Sites (7, 7)

SS Bonds (0, 0)

Cis Peptide Bonds (6, 6)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (5, 10)

PROSITE Motifs (1, 2)

Exons (0, 0)

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SCOP Domains (2, 6)

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