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Title :   CRYSTAL STRUCTURE OF TRYPANOSOME CRUZI FARNESYL DIPHOSPHATE SYNTHASE IN COMPLEX WITH [2-(N-HEPTYLAMINO)ETHANE-1,1-DIYL]BISPHOSPHONIC ACID AND MG2+

Authors :   S. Aripirala, L. M. Amzel, S. B. Gabelli

Date :   24 Feb 12 (Deposition) - 16 Jan 13 (Release) - 16 Jan 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.01

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

Keywords :   Geranyl Transferase, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. Aripirala, S. H. Szajnman, J. Jakoncic, J. B. Rodriguez, R. Docampo S. B. Gabelli, L. M. Amzel
Design, Synthesis, Calorimetry, And Crystallographic Analysis Of 2-Alkylaminoethyl-1, 1-Bisphosphonates As Inhibitors Of Trypanosoma Cruzi Farnesyl Diphosphate Synthase.
J. Med. Chem. V. 55 6445 2012
PubMed-ID: 22715997 | Reference-DOI: 10.1021/JM300425Y

Molecule 1 - FARNESYL PYROPHOSPHATE SYNTHASE
	Chains	:	A
	EC Number	:	2.5.1.10
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	FPPS
	Organism Scientific	:	TRYPANOSOMA CRUZI
	Organism Taxid	:	5693
	Synonym	:	FPPS, FARNESYL DIPHOSPHATE SYNTHASE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (6, 11)

No.	Name	Count	Type	Full Name
1	0M8	1	Ligand/Ion	[2-(HEPTYLAMINO)ETHANE-1,1-DIYL]BIS(PHOSPHONIC ACID)
2	ACT	1	Ligand/Ion	ACETATE ION
3	MG	3	Ligand/Ion	MAGNESIUM ION
4	NA	2	Ligand/Ion	SODIUM ION
5	PEG	1	Ligand/Ion	DI(HYDROXYETHYL)ETHER
6	SO4	3	Ligand/Ion	SULFATE ION

Biological Unit 1 (4, 12)

No.	Name	Count	Type	Full Name
1	0M8	2	Ligand/Ion	[2-(HEPTYLAMINO)ETHANE-1,1-DIYL]BIS(PHOSPHONIC ACID)
2	ACT	2	Ligand/Ion	ACETATE ION
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	NA	-1	Ligand/Ion	SODIUM ION
5	PEG	2	Ligand/Ion	DI(HYDROXYETHYL)ETHER
6	SO4	6	Ligand/Ion	SULFATE ION

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASP A:250 , 0M8 A:404 , HOH A:502 , HOH A:602 , HOH A:724	BINDING SITE FOR RESIDUE MG A 401
02	AC2	SOFTWARE	ASP A:98 , ASP A:102 , MG A:403 , 0M8 A:404 , HOH A:722 , HOH A:723	BINDING SITE FOR RESIDUE MG A 402
03	AC3	SOFTWARE	ASP A:98 , ASP A:102 , MG A:402 , 0M8 A:404 , HOH A:501 , HOH A:503 , HOH A:619	BINDING SITE FOR RESIDUE MG A 403
04	AC4	SOFTWARE	TYR A:94 , ASP A:98 , ASP A:102 , ARG A:107 , ASN A:126 , ILE A:129 , GLN A:167 , LYS A:207 , GLN A:247 , ASP A:250 , LYS A:264 , MG A:401 , MG A:402 , MG A:403 , HOH A:501 , HOH A:502 , HOH A:536 , HOH A:583 , HOH A:619 , HOH A:689 , HOH A:722 , HOH A:724 , HOH A:726	BINDING SITE FOR RESIDUE 0M8 A 404
05	AC5	SOFTWARE	GLY A:47 , LYS A:48 , TYR A:49 , PHE A:50 , ARG A:51 , GLN A:91 , ARG A:108 , HOH A:725 , HOH A:727 , HOH A:728	BINDING SITE FOR RESIDUE SO4 A 405
06	AC6	SOFTWARE	PHE A:17 , GLN A:21 , HIS A:141 , HOH A:640	BINDING SITE FOR RESIDUE SO4 A 406
07	AC7	SOFTWARE	ASP A:191 , ARG A:237 , SER A:334 , LEU A:335 , HOH A:573 , HOH A:593	BINDING SITE FOR RESIDUE SO4 A 407
08	AC8	SOFTWARE	GLU A:183	BINDING SITE FOR RESIDUE NA A 408
09	AC9	SOFTWARE	ASP A:176 , THR A:189 , THR A:190 , ASP A:191 , HOH A:655	BINDING SITE FOR RESIDUE NA A 409
10	BC1	SOFTWARE	LYS A:132 , GLN A:136 , TRP A:140 , LEU A:153 , PHE A:156 , GLN A:157 , ASP A:160 , HOH A:541	BINDING SITE FOR RESIDUE PEG A 410
11	BC2	SOFTWARE	LYS A:201 , GLU A:244 , HOH A:745	BINDING SITE FOR RESIDUE ACT A 411

(no "SS Bond" information available for 4DWG)

(no "Cis Peptide Bond" information available for 4DWG)

(no "SAP(SNP)/Variant" information available for 4DWG)

(no "PROSITE Motif" information available for 4DWG)

(no "Exon" information available for 4DWG)

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:361
 aligned with Q95WL3_TRYCR | Q95WL3 from UniProtKB/TrEMBL  Length:362

    Alignment length:361
                                    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 
         Q95WL3_TRYCR     1 MASMERFLSVYDEVQAFLLDQLQSKYEIDPNRARYLRIMMDTTCLGGKYFRGMTVVNVAEGFLAVTQHDEATKERILHDACVGGWMIEFLQAHYLVEDDIMDGSVMRRGKPCWYRFPGVTTQCAINDGIILKSWTQIMAWHYFADRPFLKDLLCLFQKVDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPPEQLGKVGTDIEDAKCSWLAVTFLGKANAAQVAEFKANYGDKDPAKVAVVKRLYSEANLQADFAAYEAEVVREVESLIEQLKVKSPTFAESVAVVWEKTHKRK 361
               SCOP domains d4dwga_ A: automated matches                                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...ee..ee.hhhh..hhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh...............hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh..hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4dwg A   1 MASMERFLSVYDEVQAFLLDQLQSKYEIDPNRARYLRIMMDTTCLGGKYFRGMTVVNVAEGFLAVTQHDEATKERILHDACVGGWMIEFLQAHYLVEDDIMDGSVMRRGKPCWYRFPGVTTQCAINDGIILKSWTQIMAWHYFADRPFLKDLLCLFQKVDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPPEQLGKVGTDIEDAKCSWLAVTFLGKANAAQVAEFKANYGDKDPAKVAVVKRLYSEANLQADFAAYEAEVVREVESLIEQLKVKSPTFAESVAVVWEKTHKRK 361
                                    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

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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	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(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Terpenoid synthases (196)

Superfamily: Terpenoid synthases (196)

Family: automated matches (68)

Protein domain: automated matches (68)

Trypanosoma cruzi [TaxId: 5693] (14)

d4dwga_

(no "CATH Domain" information available for 4DWG)

(no "Pfam Domain" information available for 4DWG)

Asymmetric Unit(hide GO term definitions)

Chain A (Q95WL3_TRYCR | Q95WL3)

molecular function
	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:0008299	isoprenoid biosynthetic process	The chemical reactions and pathways resulting in the formation of any isoprenoid compound, isoprene (2-methylbuta-1,3-diene) or compounds containing or derived from linked isoprene (3-methyl-2-butenylene) residues.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
		0M8	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		ACT	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		NA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
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	Cis Peptide Bonds
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Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	4dwg
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	2.5.1.10
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	Q95WL3_TRYCR \| Q95WL3	:	3id0
UniProtKB/TrEMBL
	Q95WL3_TRYCR \| Q95WL3	:	3iba 3ick 3icm 3icn 3icz 4dwb 4dxj 4dzw 4e1e

Description

Compounds

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Chains, Units

Ligands, Modified Residues, Ions (6, 11)

Sites (11, 11)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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