1FEB - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   UNLIGANDED CRITHIDIA FASCICULATA TRYPANOTHIONE REDUCTASE AT 2.0 ANGSTROM RESOLUTION

Authors :   C. Strickland, P. Karplus

Date :   12 Jul 95 (Deposition) - 11 Jan 97 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Redox-Active Center, Oxidoreductase, Flavoprotein, Fad, Nadp (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. L. Strickland, P. A. Karplus
Crithidia Fasciculata Trypanothione Reductase At 1. 70 A Resolution
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - TRYPANOTHIONE REDUCTASE
	Chains	:	A, B
	EC Number	:	1.6.4.8
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Gene	:	TR1
	Expression System Plasmid	:	PET-TR1
	Expression System Taxid	:	562
	Expression System Vector Type	:	T7
	Gene	:	TR1
	Organism Scientific	:	CRITHIDIA FASCICULATA
	Organism Taxid	:	5656
	Other Details	:	ORTHORHOMBIC CRYSTAL FORM, DIMER IN THE ASYMMETRIC UNIT
	Other Details - Source	:	SEE STRICKLAND, ET. AL. (1995) ACTA CRYST. D51, 337-341

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 2)

No.	Name	Count	Type	Full Name
1	FAD	2	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:10 , GLY A:12 , SER A:13 , GLY A:14 , ILE A:33 , ASP A:34 , LEU A:35 , ALA A:45 , ALA A:46 , GLY A:49 , THR A:50 , CYS A:51 , GLY A:55 , CYS A:56 , LYS A:59 , GLY A:124 , PHE A:125 , GLY A:126 , ALA A:158 , THR A:159 , GLY A:160 , TYR A:197 , ARG A:286 , ARG A:289 , GLY A:325 , ASP A:326 , MET A:332 , LEU A:333 , THR A:334 , PRO A:335 , HOH A:518 , HOH A:520 , HOH A:525 , HOH A:528 , HOH A:586 , HOH A:601 , HOH A:618 , HIS B:460	BINDING SITE FOR RESIDUE FAD A 499
2	AC2	SOFTWARE	HIS A:460 , ILE B:9 , GLY B:10 , GLY B:12 , SER B:13 , GLY B:14 , ILE B:33 , ASP B:34 , ALA B:45 , ALA B:46 , GLY B:49 , THR B:50 , CYS B:51 , VAL B:54 , GLY B:55 , CYS B:56 , LYS B:59 , GLY B:124 , PHE B:125 , GLY B:126 , ALA B:158 , THR B:159 , GLY B:160 , TYR B:197 , ILE B:198 , ARG B:286 , ARG B:289 , GLY B:325 , ASP B:326 , MET B:332 , LEU B:333 , THR B:334 , PRO B:335 , HOH B:500 , HOH B:502 , HOH B:510 , HOH B:516 , HOH B:526	BINDING SITE FOR RESIDUE FAD B 499

Asymmetric/Biological Unit

No.	Residues
1	A:51	-	A:56
2	B:51	-	B:56

Asymmetric/Biological Unit

No.	Residues
1	Pro A:41	-	Pro A:42
2	Ile A:368	-	Pro A:369
3	His A:460	-	Pro A:461
4	Pro B:41	-	Pro B:42
5	Ile B:368	-	Pro B:369
6	His B:460	-	Pro B:461

Asymmetric/Biological Unit (1, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_TYTR_CRIFA_001 *	Q	479	E	TYTR_CRIFA	---	---	A/B	E	478	E
	* 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_CRIFA	49-59	2	A:48-58 B:48-58

(no "Exon" information available for 1FEB)

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:487
 aligned with TYTR_CRIFA | P39040 from UniProtKB/Swiss-Prot  Length:491

    Alignment length:487
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       
           TYTR_CRIFA     2 SRAYDLVVIGAGSGGLEAGWNAASLHKKRVAVIDLQKHHGPPHYAALGGTCVNVGCVPKKLMVTGANYMDTIRESAGFGWELDRESVRPNWKALIAAKNKAVSGINDSYEGMFADTEGLTFHQGFGALQDNHTVLVRESADPNSAVLETLDTEYILLATGSWPQHLGIEGDDLCITSNEAFYLDEAPKRALCVGGGYISIEFAGIFNAYKARGGQVDLAYRGDMILRGFDSELRKQLTEQLRANGINVRTHENPAKVTKNADGTRHVVFESGAEADYDVVMLAIGRVPRSQTLQLDKAGVEVAKNGAIKVDAYSKTNVDNIYAIGDVTDRVMLTPVAINEGAAFVDTVFANKPRATDHTKVACAVFSIPPMGVCGYVEEDAAKKYDQVAVYESSFTPLMHNISGSTYKKFMVRIVTNHADGEVLGVHMLGDSSPEIIQSVAICLKMGAKISDFYNTIGVHPTSAEELCSMRTPAYFYQKGKRVEKID 488
               SCOP domains d1feba1 A:1-169,A:287-357 Trypanothione reductase                                                                                                                        d1feba2 A:170-286 Trypanothione reductase                                                                            d1feba1 A:1-169,A:287-357 Trypanothione reductase                      d1feba3 A:358-487 Trypanothione reductase                                                                                          SCOP domains
               CATH domains 1febA01 A:1-163,A:285-359  [code=3.50.50.60, no name defined]                                                                                                      1febA02 A:164-284  [code=3.50.50.60, no name defined]                                                                    1febA01 A:1-163,A:285-359  [code=3.50.50.60, no name defined]              1febA03 A:360-486  [code=3.30.390.30, no name defined]                                                                         - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee...hhhhhhhhhhhhhh...eeeee..............hhhhhh.hhhhhhhhhhhhhhhhhhhhhhh.....hhh....hhhhhhhhhhhhhhhhhhhhhhhh....eeeee.eeeeee..eeeee........eeeeee..eeee...eee.......hhh...hhhhhh......eeeee...hhhhhhhhhhhhh.....eeeeee..........hhhhhhhhhhhhh...eeee...eeeeee.....eeeee....eeee.eeee...eee......hhhh......................eee.hhhh.....hhhhhhhhhhhhhhhh.............eee.....eeeee..hhhhhhh..eeeeeeeeee.hhhhh......eeeeeeeee....eeeeeeee...hhhhhhhhhhhhh....hhhhh.........hhhhh......eeee..eee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------E--------- SAPs(SNPs)
                    PROSITE -----------------------------------------------PYRIDINE_RE--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1feb A   1 SRAYDLVVIGAGSGGLEAGWNAASLHKKRVAVIDLQKHHGPPHYAALGGTCVNVGCVPKKLMVTGANYMDTIRESAGFGWELDRESVRPNWKALIAAKNKAVSGINDSYEGMFADTEGLTFHQGFGALQDNHTVLVRESADPNSAVLETLDTEYILLATGSWPQHLGIEGDDLCITSNEAFYLDEAPKRALCVGGGYISIEFAGIFNAYKARGGQVDLAYRGDMILRGFDSELRKQLTEQLRANGINVRTHENPAKVTKNADGTRHVVFESGAEADYDVVMLAIGRVPRSQTLQLEKAGVEVAKNGAIKVDAYSKTNVDNIYAIGDVTDRVMLTPVAINEGAAFVDTVFANKPRATDHTKVACAVFSIPPMGVCGYVEEDAAKKYDQVAVYESSFTPLMHNISGSTYKKFMVRIVTNHADGEVLGVHMLGDSSPEIIQSVAICLKMGAKISDFYNTIGVHPTSAEELCSMRTPAYFYEKGKRVEKID 487
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480

Chain B from PDB  Type:PROTEIN  Length:484
 aligned with TYTR_CRIFA | P39040 from UniProtKB/Swiss-Prot  Length:491

    Alignment length:484
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481    
           TYTR_CRIFA     2 SRAYDLVVIGAGSGGLEAGWNAASLHKKRVAVIDLQKHHGPPHYAALGGTCVNVGCVPKKLMVTGANYMDTIRESAGFGWELDRESVRPNWKALIAAKNKAVSGINDSYEGMFADTEGLTFHQGFGALQDNHTVLVRESADPNSAVLETLDTEYILLATGSWPQHLGIEGDDLCITSNEAFYLDEAPKRALCVGGGYISIEFAGIFNAYKARGGQVDLAYRGDMILRGFDSELRKQLTEQLRANGINVRTHENPAKVTKNADGTRHVVFESGAEADYDVVMLAIGRVPRSQTLQLDKAGVEVAKNGAIKVDAYSKTNVDNIYAIGDVTDRVMLTPVAINEGAAFVDTVFANKPRATDHTKVACAVFSIPPMGVCGYVEEDAAKKYDQVAVYESSFTPLMHNISGSTYKKFMVRIVTNHADGEVLGVHMLGDSSPEIIQSVAICLKMGAKISDFYNTIGVHPTSAEELCSMRTPAYFYQKGKRVE 485
               SCOP domains d1febb1 B:1-169,B:287-357 Trypanothione reductase                                                                                                                        d1febb2 B:170-286 Trypanothione reductase                                                                            d1febb1 B:1-169,B:287-357 Trypanothione reductase                      d1febb3 B:358-484 Trypanothione reductase                                                                                       SCOP domains
               CATH domains 1febB01 B:1-163,B:285-359  [code=3.50.50.60, no name defined]                                                                                                      1febB02 B:164-284  [code=3.50.50.60, no name defined]                                                                    1febB01 B:1-163,B:285-359  [code=3.50.50.60, no name defined]              1febB03 B:360-484  [code=3.30.390.30, no name defined]                                                                        CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee...hhhhhhhhhhhhh....eeeee..............hhhhhh.hhhhhhhhhhhhhhhhhhhhh.......hhh....hhhhhhhhhhhhhhhhhhhhhhhh....eeeee.eeeeee..eeeee........eeeeee..eeee...eee.......hhh...hhhhhh......eeeee...hhhhhhhhhhhhh.....eeeeee..........hhhhhhhhhhhhhh.eeeee...eeeeee.....eeeee....eeee.eeee...eee......hhhh......................eee..hhh.....hhhhhhhhhhhhhhhh.............eee.....eeeee..hhhhh....eeeeeeeeee.hhhhhh.....eeeeeeeee....eeeeeeee...hhhhhhhhhhhhhh...hhhh..........hhhhh......eeee..eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------E------ SAPs(SNPs)
                    PROSITE -----------------------------------------------PYRIDINE_RE------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1feb B   1 SRAYDLVVIGAGSGGLEAGWNAASLHKKRVAVIDLQKHHGPPHYAALGGTCVNVGCVPKKLMVTGANYMDTIRESAGFGWELDRESVRPNWKALIAAKNKAVSGINDSYEGMFADTEGLTFHQGFGALQDNHTVLVRESADPNSAVLETLDTEYILLATGSWPQHLGIEGDDLCITSNEAFYLDEAPKRALCVGGGYISIEFAGIFNAYKARGGQVDLAYRGDMILRGFDSELRKQLTEQLRANGINVRTHENPAKVTKNADGTRHVVFESGAEADYDVVMLAIGRVPRSQTLQLEKAGVEVAKNGAIKVDAYSKTNVDNIYAIGDVTDRVMLTPVAINEGAAFVDTVFANKPRATDHTKVACAVFSIPPMGVCGYVEEDAAKKYDQVAVYESSFTPLMHNISGSTYKKFMVRIVTNHADGEVLGVHMLGDSSPEIIQSVAICLKMGAKISDFYNTIGVHPTSAEELCSMRTPAYFYEKGKRVE 484
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480

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)

Crithidia fasciculata. Organism_taxid: 5656. (3)

1a	1febB03	B:360-484
1b	1febA03	A:360-486

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

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

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

Crithidia fasciculata. Organism_taxid: 5656. (3)

2a	1febA01	A:1-163,A:285-359
2b	1febA02	A:164-284
2c	1febB02	B:164-284
2d	1febB01	B:1-163,B:285-359

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (TYTR_CRIFA | P39040)

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:460 - Pro A:461	[ RasMol ]
		His B:460 - Pro B:461	[ RasMol ]
		Ile A:368 - Pro A:369	[ RasMol ]
		Ile B:368 - Pro B:369	[ RasMol ]
		Pro A:41 - Pro A:42	[ RasMol ]
		Pro B:41 - Pro B:42	[ RasMol ]

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	1feb
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	TYTR_CRIFA \| P39040
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	1.6.4.8
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	TYTR_CRIFA \| P39040	:	1fea 1fec 1typ 1tyt 2tpr

Description

Compounds

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Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (2, 2)

SS Bonds (2, 2)

Cis Peptide Bonds (6, 6)

Sequence-Structure Mapping

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Exons (0, 0)

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