4C1L - JenaLib

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Title :   CRYSTAL STRUCTURE OF PYROCOCCUS FURIOSUS 3-DEOXY-D-ARABINO-HEPTULOSONATE 7-PHOSPHATE SYNTHASE I181D INTERFACE MUTANT

Authors :   A. R. Nazmi, L. R. Schofield, R. C. J. Dobson, G. B. Jameson, E. J. Parker

Date :   13 Aug 13 (Deposition) - 20 Nov 13 (Release) - 05 Feb 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

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

Keywords :   Transferase, Shikimate Pathway, Interface Mutant (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. R. Nazmi, L. R. Schofield, R. C. J. Dobson, G. B. Jameson, E. J. Parker
Destabilization Of The Homotetrameric Assembly Of 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase From The Hyperthermophile Pyrococcus Furiosus Enhances Enzymatic Activity
J. Mol. Biol. V. 426 656 2014
PubMed-ID: 24239948 | Reference-DOI: 10.1016/J.JMB.2013.11.008

Molecule 1 - 2-DEHYDRO-3-DEOXYPHOSPHOHEPTONATE ALDOLASE
	Chains	:	A, B
	EC Number	:	2.5.1.54
	Mutation	:	YES
	Organism Scientific	:	PYROCOCCUS FURIOSUS
	Organism Taxid	:	2261
	Synonym	:	3-DEOXY-D-ARABINO-2 HEPTULOSONATE 7-PHOSPHATE SYNTHASE I181D, DAH7PS, DAHPS

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 9)

No.	Name	Count	Type	Full Name
1	1PE	1	Ligand/Ion	PENTAETHYLENE GLYCOL
2	CL	4	Ligand/Ion	CHLORIDE ION
3	K	2	Ligand/Ion	POTASSIUM ION
4	MN	2	Ligand/Ion	MANGANESE (II) ION

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	1PE	2	Ligand/Ion	PENTAETHYLENE GLYCOL
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	K	-1	Ligand/Ion	POTASSIUM ION
4	MN	-1	Ligand/Ion	MANGANESE (II) ION

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:31 , HIS A:201 , GLU A:227 , ASP A:238	BINDING SITE FOR RESIDUE MN A1263
2	AC2	SOFTWARE	LYS A:136 , ARG A:166 , HIS A:201 , HOH A:2120 , HOH A:2127	BINDING SITE FOR RESIDUE CL A1264
3	AC3	SOFTWARE	CYS B:31 , HIS B:201 , GLU B:227 , ASP B:238 , CL B:1267	BINDING SITE FOR RESIDUE MN B1263
4	AC4	SOFTWARE	MET B:1 , LYS B:2 , SER B:4 , GLU B:6	BINDING SITE FOR RESIDUE 1PE B1264
5	AC5	SOFTWARE	LYS B:136 , ARG B:166 , HIS B:201 , HOH B:2122 , HOH B:2125	BINDING SITE FOR RESIDUE CL B1265
6	AC6	SOFTWARE	ARG B:55 , GLN B:111 , LYS B:136 , HIS B:201 , CL B:1267	BINDING SITE FOR RESIDUE CL B1266
7	AC7	SOFTWARE	ARG B:55 , LYS B:60 , HIS B:201 , MN B:1263 , CL B:1266 , HOH B:2061	BINDING SITE FOR RESIDUE CL B1267
8	AC8	SOFTWARE	THR B:170 , GLU B:172 , HOH B:2152 , HOH B:2154 , HOH B:2157 , HOH B:2159	BINDING SITE FOR RESIDUE K B1268
9	AC9	SOFTWARE	THR A:170 , GLU A:172 , HOH A:2170 , HOH A:2171 , HOH A:2172 , HOH A:2174	BINDING SITE FOR RESIDUE K A1265

(no "SS Bond" information available for 4C1L)

(no "Cis Peptide Bond" information available for 4C1L)

(no "SAP(SNP)/Variant" information available for 4C1L)

(no "PROSITE Motif" information available for 4C1L)

(no "Exon" information available for 4C1L)

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:262
 aligned with Q8U0A9_PYRFU | Q8U0A9 from UniProtKB/TrEMBL  Length:262

    Alignment length:262
                                    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  
         Q8U0A9_PYRFU     1 MKYSKEYKEKTVVKINDVKFGEGFTIIAGPCSIESRDQIMKVAEFLAEVGIKVLRGGAFKPRTSPYSFQGYGEKALRWMREAADEYGLVTVTEVMDTRHVELVAKYSDILQIGARNSQNFELLKEVGKVENPVLLKRGMGNTIQELLYSAEYIMAQGNENVILCERGIRTFETATRFTLDISAVPVVKELSHLPIIVDPSHPAGRRSLVIPLAKAAYAIGADGIMVEVHPEPEKALSDSQQQLTFDDFLQLLKELEALGWKG 262
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eee..eee....eeeee.....hhhhhhhhhhhhhhh...eee................hhhhhhhhhhhhhhhh.eeeee..hhhhhhhhhhhh.eeeehhhhh.hhhhhhhhh.....eeee.....hhhhhhhhhhhhhhh....eeeee................hhhhhhhhhh...eee.hhhhhhhhhhhhhhhhhhhhhh..eeeee...hhhhh........hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4c1l A   1 MKYSKEYKEKTVVKINDVKFGEGFTIIAGPCSIESRDQIMKVAEFLAEVGIKVLRGGAFKPRTSPYSFQGYGEKALRWMREAADEYGLVTVTEVMDTRHVELVAKYSDILQIGARNSQNFELLKEVGKVENPVLLKRGMGNTIQELLYSAEYIMAQGNENVILCERGIRTFETATRFTLDDSAVPVVKELSHLPIIVDPSHPAGRRSLVIPLAKAAYAIGADGIMVEVHPEPEKALSDSQQQLTFDDFLQLLKELEALGWKG 262
                                    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

Chain B from PDB  Type:PROTEIN  Length:262
 aligned with Q8U0A9_PYRFU | Q8U0A9 from UniProtKB/TrEMBL  Length:262

    Alignment length:262
                                    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  
         Q8U0A9_PYRFU     1 MKYSKEYKEKTVVKINDVKFGEGFTIIAGPCSIESRDQIMKVAEFLAEVGIKVLRGGAFKPRTSPYSFQGYGEKALRWMREAADEYGLVTVTEVMDTRHVELVAKYSDILQIGARNSQNFELLKEVGKVENPVLLKRGMGNTIQELLYSAEYIMAQGNENVILCERGIRTFETATRFTLDISAVPVVKELSHLPIIVDPSHPAGRRSLVIPLAKAAYAIGADGIMVEVHPEPEKALSDSQQQLTFDDFLQLLKELEALGWKG 262
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eee..eee....eeeee.....hhhhhhhhhhhhhhh...eee................hhhhhhhhhhhhhhhh.eeeee..hhhhhhhhhhhh.eeeehhhhh.hhhhhhhhh.....eeee.....hhhhhhhhhhhhhhh....eeeee................hhhhhhhhhh...eee.hhhhhhhhhhhhhhhhhhhhhh..eeeee...hhhhh........hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4c1l B   1 MKYSKEYKEKTVVKINDVKFGEGFTIIAGPCSIESRDQIMKVAEFLAEVGIKVLRGGAFKPRTSPYSFQGYGEKALRWMREAADEYGLVTVTEVMDTRHVELVAKYSDILQIGARNSQNFELLKEVGKVENPVLLKRGMGNTIQELLYSAEYIMAQGNENVILCERGIRTFETATRFTLDDSAVPVVKELSHLPIIVDPSHPAGRRSLVIPLAKAAYAIGADGIMVEVHPEPEKALSDSQQQLTFDDFLQLLKELEALGWKG 262
                                    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

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 '\|'

(no "SCOP Domain" information available for 4C1L)

(no "CATH Domain" information available for 4C1L)

(no "Pfam Domain" information available for 4C1L)

Asymmetric Unit(hide GO term definitions)

Chain A,B (Q8U0A9_PYRFU | Q8U0A9)

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:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
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		AC8	[ RasMol ]	+environment [ RasMol ]
		AC9	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 4c1l)

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	4c1l
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	2.5.1.54
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	Q8U0A9_PYRFU \| Q8U0A9	:	1zco 4c1k 4grs

4c1k	CRYSTAL STRUCTURE OF PYROCOCCUS FURIOSUS 3-DEOXY-D- ARABINO-HEPTULOSONATE 7-PHOSPHATE SYNTHASE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 9)

Sites (9, 9)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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Gene Ontology (7, 7)

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