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Title :   TRUNCATED FORM OF 3-DEOXY-D-ARABINO-HEPTULOSONATE 7-PHOSPHATE SYNTHASE FROM THERMOTOGA MARITIMA

Authors :   P. J. Cross, R. C. J. Dobson, M. L. Patchett, E. J. Parker

Date :   31 Oct 10 (Deposition) - 26 Jan 11 (Release) - 12 Nov 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Thermotoga Maritima, Dah7Ps, Shikimate Pathway, Aromatic Biosynthesis, Transferase, Tim Barrel (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. J. Cross, R. C. J. Dobson, M. L. Patchett, E. J. Parker
Tyrosine Latching Of A Regulatory Gate Affords Allosteric Control Of Aromatic Amino Acid Biosynthesis
J. Biol. Chem. V. 286 10216 2011
PubMed-ID: 21282100 | Reference-DOI: 10.1074/JBC.M110.209924

Molecule 1 - PHOSPHO-2-DEHYDRO-3-DEOXYHEPTONATE ALDOLASE
	Chains	:	A, B
	EC Number	:	2.5.1.54
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PT7-7
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	CATALYTIC DOMAIN
	Gene	:	AROF
	Organism Scientific	:	THERMOTOGA MARITIMA
	Organism Taxid	:	2336
	Strain	:	MSB8 (DSM3109)
	Synonym	:	3-DEOXY-D-ARABINO-HEPTULOSONATE 7-PHOSPHATE SYNTHASE, DAHP SYNTHASE, PHOSPHO-2-KETO-3-DEOXYHEPTONATE ALDOLASE

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 9)

No.	Name	Count	Type	Full Name
1	AZI	1	Ligand/Ion	AZIDE ION
2	CSD	2	Mod. Amino Acid	3-SULFINOALANINE
3	GOL	6	Ligand/Ion	GLYCEROL

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ALA A:175 , GLU A:176 , TYR A:177 , ALA A:178 , ASP A:179 , PHE A:191 , LYS A:202 , HOH A:415	BINDING SITE FOR RESIDUE GOL A 1
2	AC2	SOFTWARE	VAL A:104 , GLY A:127 , ALA A:129 , TYR A:130 , LYS A:131 , GLY A:143	BINDING SITE FOR RESIDUE GOL A 3
3	AC3	SOFTWARE	SER A:199	BINDING SITE FOR RESIDUE AZI A 6
4	AC4	SOFTWARE	HOH A:46 , PRO A:256 , ARG A:259 , VAL A:290 , HOH A:342 , HOH A:363 , PRO B:282 , ARG B:285	BINDING SITE FOR RESIDUE GOL A 7
5	AC5	SOFTWARE	ARG A:285 , PRO B:256 , ARG B:259 , VAL B:290	BINDING SITE FOR RESIDUE GOL B 2
6	AC6	SOFTWARE	HOH B:1 , HOH B:58 , ARG B:151 , ALA B:175 , GLU B:176 , TYR B:177 , ALA B:178 , ASP B:179 , LYS B:202 , HOH B:351	BINDING SITE FOR RESIDUE GOL B 5
7	AC7	SOFTWARE	VAL B:104 , GLY B:127 , ALA B:129 , TYR B:130 , LYS B:131 , GLY B:143 , LEU B:147	BINDING SITE FOR RESIDUE GOL B 8

(no "SS Bond" information available for 3PG8)

(no "Cis Peptide Bond" information available for 3PG8)

(no "SAP(SNP)/Variant" information available for 3PG8)

(no "PROSITE Motif" information available for 3PG8)

(no "Exon" information available for 3PG8)

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:265
 aligned with AROF_THEMA | Q9WYH8 from UniProtKB/Swiss-Prot  Length:338

    Alignment length:272
                                    76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336  
           AROF_THEMA    67 KPYKLVSREFHPEDTVIDLGDVKIGNGYFTIIAGPCSVEGREMLMETAHFLSELGVKVLRGGAYKPRTSPYSFQGLGEKGLEYLREAADKYGMYVVTEALGEDDLPKVAEYADIIQIGARNAQNFRLLSKAGSYNKPVLLKRGFMNTIEEFLLSAEYIANSGNTKIILCERGIRTFEKATRNTLDISAVPIIRKESHLPILVDPSHSGGRRDLVIPLSRAAIAVGAHGIIVEVHPEPEKALSDGKQSLDFELFKELVQEMKKLADALGVKVN 338
               SCOP domains d3pg8a_ A: automated matches                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............eee....eee..eeeeeee.....hhhhhhhhhhhhhhh...eeeeee....-------..hhhhhhhhhhhhhhhh.eeeee..hhhhhhhhhhhh.eeeehhhhh.hhhhhhhhhh....eeee.....hhhhhhhhhhhhhhh....eeeee................hhhhhhhhhh...eee.......hhhhhhhhhhhhhhhh..eeeee...hhhhh........hhhhhhhhhhhhhhhhhhhh.ee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pg8 A  67 GSFTLVSREFHPEDTVIDLGDVKIGNGYFTIIAGPcSVEGREMLMETAHFLSELGVKVLRGGAYKPR-------GLGEKGLEYLREAADKYGMYVVTEALGEDDLPKVAEYADIIQIGARNAQNFRLLSKAGSYNKPVLLKRGFMNTIEEFLLSAEYIANSGNTKIILCERGIRTFEKATRNTLDISAVPIIRKESHLPILVDPSHSGGRRDLVIPLSRAAIAVGAHGIIVEVHPEPEKALSDGKQSLDFELFKELVQEMKKLADALGVKVN 338
                                    76        86        96     | 106       116       126      |  -    |  146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336  
                                                             102-CSD                        133     141

Chain B from PDB  Type:PROTEIN  Length:262
 aligned with AROF_THEMA | Q9WYH8 from UniProtKB/Swiss-Prot  Length:338

    Alignment length:272
                                    76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336  
           AROF_THEMA    67 KPYKLVSREFHPEDTVIDLGDVKIGNGYFTIIAGPCSVEGREMLMETAHFLSELGVKVLRGGAYKPRTSPYSFQGLGEKGLEYLREAADKYGMYVVTEALGEDDLPKVAEYADIIQIGARNAQNFRLLSKAGSYNKPVLLKRGFMNTIEEFLLSAEYIANSGNTKIILCERGIRTFEKATRNTLDISAVPIIRKESHLPILVDPSHSGGRRDLVIPLSRAAIAVGAHGIIVEVHPEPEKALSDGKQSLDFELFKELVQEMKKLADALGVKVN 338
               SCOP domains d3pg8b_ B: automated matches                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----DAHP_synth_1-3pg8B01 B:71-333                                                                                                                                                                                                                                          ----- Pfam domains (1)
           Pfam domains (2) ----DAHP_synth_1-3pg8B02 B:71-333                                                                                                                                                                                                                                          ----- Pfam domains (2)
         Sec.struct. author ................ee....ee...eeeeeee.....hhhhhhhhhhhhhhh...eeeeeee.----------.hhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhh.eeeehhhhh.hhhhhhhhhhhh..eeee.....hhhhhhhhhhhhhhh....eeeee................hhhhhhhhhh...eee.......hhhhhhhhhhhhhhhh..eeeee..........hhhhh.hhhhhhhhhhhhhhhhhhhh.ee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pg8 B  67 GSFTLVSREFHPEDTVIDLGDVKIGNGYFTIIAGPcSVEGREMLMETAHFLSELGVKVLRGGAYK----------LGEKGLEYLREAADKYGMYVVTEALGEDDLPKVAEYADIIQIGARNAQNFRLLSKAGSYNKPVLLKRGFMNTIEEFLLSAEYIANSGNTKIILCERGIRTFEKATRNTLDISAVPIIRKESHLPILVDPSHSGGRRDLVIPLSRAAIAVGAHGIIVEVHPEPEKALSDGKQSLDFELFKELVQEMKKLADALGVKVN 338
                                    76        86        96     | 106       116       126    |    -     | 146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336  
                                                             102-CSD                      131        142

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(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: TIM beta/alpha-barrel (3956)

Superfamily: Aldolase (457)

Family: Class I DAHP synthetase (87)

Protein domain: automated matches (27)

Thermotoga maritima [TaxId: 2336] (3)

1a	d3pg8a_	A:
1b	d3pg8b_	B:

(no "CATH Domain" information available for 3PG8)

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: TIM_barrel (694)

Family: DAHP_synth_1 (46)

Thermotoga maritima (4)

1a	DAHP_synth_1-3pg8B01	B:71-333
1b	DAHP_synth_1-3pg8B02	B:71-333

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (AROF_THEMA | Q9WYH8)

molecular function
	GO:0003849	3-deoxy-7-phosphoheptulonate synthase activity	Catalysis of the reaction: D-erythrose 4-phosphate + H(2)O + phosphoenolpyruvate = 7-phospho-2-dehydro-3-deoxy-D-arabino-heptonate + phosphate.
	GO:0016832	aldehyde-lyase activity	Catalysis of the cleavage of a C-C bond in a molecule containing a hydroxyl group and a carbonyl group to form two smaller molecules, each being an aldehyde or a ketone.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	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:0009073	aromatic amino acid family biosynthetic process	The chemical reactions and pathways resulting in the formation of aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).
	GO:0009058	biosynthetic process	The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
	GO:0008652	cellular amino acid biosynthetic process	The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
	GO:0009423	chorismate biosynthetic process	The chemical reactions and pathways resulting in the formation of the unsymmetrical ether derived from phosphoenolpyruvate and 5-phosphoshikimic acid formed as an intermediate in the biosynthesis of aromatic amino acids and many other compounds.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3pg8)

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	AROF_THEMA \| Q9WYH8	:	1rzm 1vr6 3pg9 4grs

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 9)

Sites (7, 7)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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