1Q0J - JenaLib

Theoretical Model (Jmol Viewer)

Title :   ROTATIONAL-ECHO DOUBLE-RESONANCE NMR-RESTRAINED REFINEMENT OF THE X-RAY DETERMINED MODEL (1G6S) OF THE TERNARY COMPLEX OF 5-ENOLPYRUVYLSHIKIMATE-3-PHOSPHATE SYNTHASE

Authors :   L. M. Mcdowell, B. Poliks, D. R. Studelska, R. D. O'Connor, D. D. Beusen

Date :   16 Jul 03 (Deposition) - 09 Mar 04 (Release) - 13 Apr 04 (Revision)

Method :   THEORETICAL MODEL

Resolution :   NOT APPLICABLE

Chains :   Theor. Model : A,_^#
( ^#: chains that contain no standard or modified protein/DNA/RNA residue)

Keywords :   Redor, Solid-State Nmr Structure, Molecular Modeling (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. M. Mcdowell, B. Poliks, D. R. Studelska, R. D. O'Connor, D. D. Beusen, J. Schaefer
Rotational-Echo Double-Resonance Nmr-Restrained Model Of The Ternary Complex Of 5-Enolpyruvylshikimate-3-Phosphate Synthase.
J. Biomol. Nmr V. 28 11 2004
PubMed: search
(for further references see the PDB file header)

Molecule 1 - 3-PHOSPHOSHIKIMATE 1-CARBOXYVINYLTRANSFERASE
	Chains	:	A
	EC Number	:	2.5.1.19
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Common	:	BACTERIA
	Expression System Strain	:	W3110, W3110TRP A33, OR AB3608(ATTC #23790)
	Expression System Vector Type	:	PLASMIDS FEATURING A RECA PROMOTER WITH G10-L VIRAL RIBOSOME BINDING SITE
	Gene	:	AROA
	Mutation	:	YES
	Organism Common	:	BACTERIA
	Organism Scientific	:	ESCHERICHIA COLI
	Synonym	:	5-ENOLPYRUVYLSHIKIMATE-3-PHOSPHATE SYNTHASE, EPSP SYNTHASE, EPSPS


Theoretical Model	:

( ^#: chains that contain no standard or modified protein/DNA/RNA residue)

Summary Information (see also Sequences/Alignments below)

Theoretical Model (3, 12)

No.	Name	Count	Type	Full Name
1	FMT	10	Ligand/Ion	FORMIC ACID
2	GPJ	1	Ligand/Ion	GLYPHOSATE
3	S3P	1	Ligand/Ion	SHIKIMATE-3-PHOSPHATE

(no "Site" information available for 1Q0J)

(no "SS Bond" information available for 1Q0J)

Theoretical Model

No.	Residues
1	Pro A:149	-	Pro A:150
2	Gly A:257	-	Gly A:258

(no "SAP(SNP)/Variant" information available for 1Q0J)

Theoretical Model (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EPSP_SYNTHASE_1	PS00104	EPSP synthase signature 1.	AROA_ECO57	90-104	1	A:90-104
1	EPSP_SYNTHASE_1	PS00104	EPSP synthase signature 1.	AROA_ECOLI	90-104	1	A:90-104
2	EPSP_SYNTHASE_2	PS00885	EPSP synthase signature 2.	AROA_ECO57	338-356	1	A:338-356
2	EPSP_SYNTHASE_2	PS00885	EPSP synthase signature 2.	AROA_ECOLI	338-356	1	A:338-356

(no "Exon" information available for 1Q0J)

Theoretical Model

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:427
 aligned with AROA_ECO57 | P0A6D4 from UniProtKB/Swiss-Prot  Length:427

    Alignment length:427
                                    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       
           AROA_ECO57     1 MESLTLQPIARVDGTINLPGSKSVSNRALLLAALAHGKTVLTNLLDSDDVRHMLNALTALGVSYTLSADRTRCEIIGNGGPLHAEGALELFLGNAGTAMRPLAAALCLGSNDIVLTGEPRMKERPIGHLVDALRLGGAKITYLEQENYPPLRLQGGFTGGNVDVDGSVSSQFLTALLMTAPLAPEDTVIRIKGDLVSKPYIDITLNLMKTFGVEIENQHYQQFVVKGGQSYQSPGTYLVEGDASSASYFLAAAAIKGGTVKVTGIGRNSMQGDIRFADVLEKMGATICWGDDYISCTRGELNAIDMDMNHIPDAAMTIATAALFAKGTTTLRNIYNWRVKETDRLFAMATELRKVGAEVEEGHDYIRITPPEKLNFAEIATYNDHRMAMCFSLVALSDTPVTILDPKCTAKTFPDYFEQLARISQAA 427
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee....ee.eee....hhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh...eee......eeee...........eeee...hhhhhhhhhhhh......eeee.hhhhhhh.hhhhhhhhhhh...eee........eee......eeeee....hhhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhh....eee...eeee..........eee...hhhhhhhhhhhhhhhh.eeeee........hhhhhhhhhhhhh.eeee...eeeee.......eee...hhhhhhhhhhhhhhh...eeee..........hhhhhhhhhhhhhh.eeee....eeee........ee....hhhhhhhhhh.......eeee.hhhhhhh..hhhhhhhhhee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------EPSP_SYNTHASE_1-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EPSP_SYNTHASE_2    ----------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0j A   1 MESLTLQPIARVDGTINLPGSKSVSNRALLLAALAHGKTVLTNLLDSDDVRHMLNALTALGVSYTLSADRTRCEIIGNGGPLHAEGALELFLGNAGTAMRPLAAALCLGSNDIVLTGEPRMKERPIGHLVDALRLGGAKITYLEQENYPPLRLQGGFTGGNVDVDGSVSSQWLTALLMTAPLAPEDTVIRIKGDLVSKPYIDITLNLMKTFGVEIENQHYQQFVVKGGQSYQSPGTYLVEGDASSASYFLAAAAIKGGTVKVTGIGRNSMQGDIRFADVLEKMGATICWGDDYISCTRGELNAIDMDMNHIPDAAMTIATAALFAKGTTTLRNIYNWRVKETDRLFAMATELRKVGAEVEEGHDYIRITPPEKLNFAEIATYNDHRMAMCFSLVALSDTPVTILDPKCTAKTFPDYFEQLARISQAA 427
                                    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

Chain A from PDB  Type:PROTEIN  Length:427
 aligned with AROA_ECOLI | P0A6D3 from UniProtKB/Swiss-Prot  Length:427

    Alignment length:427
                                    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       
           AROA_ECOLI     1 MESLTLQPIARVDGTINLPGSKSVSNRALLLAALAHGKTVLTNLLDSDDVRHMLNALTALGVSYTLSADRTRCEIIGNGGPLHAEGALELFLGNAGTAMRPLAAALCLGSNDIVLTGEPRMKERPIGHLVDALRLGGAKITYLEQENYPPLRLQGGFTGGNVDVDGSVSSQFLTALLMTAPLAPEDTVIRIKGDLVSKPYIDITLNLMKTFGVEIENQHYQQFVVKGGQSYQSPGTYLVEGDASSASYFLAAAAIKGGTVKVTGIGRNSMQGDIRFADVLEKMGATICWGDDYISCTRGELNAIDMDMNHIPDAAMTIATAALFAKGTTTLRNIYNWRVKETDRLFAMATELRKVGAEVEEGHDYIRITPPEKLNFAEIATYNDHRMAMCFSLVALSDTPVTILDPKCTAKTFPDYFEQLARISQAA 427
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee....ee.eee....hhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh...eee......eeee...........eeee...hhhhhhhhhhhh......eeee.hhhhhhh.hhhhhhhhhhh...eee........eee......eeeee....hhhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhh....eee...eeee..........eee...hhhhhhhhhhhhhhhh.eeeee........hhhhhhhhhhhhh.eeee...eeeee.......eee...hhhhhhhhhhhhhhh...eeee..........hhhhhhhhhhhhhh.eeee....eeee........ee....hhhhhhhhhh.......eeee.hhhhhhh..hhhhhhhhhee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) -----------------------------------------------------------------------------------------EPSP_SYNTHASE_1-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EPSP_SYNTHASE_2    ----------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0j A   1 MESLTLQPIARVDGTINLPGSKSVSNRALLLAALAHGKTVLTNLLDSDDVRHMLNALTALGVSYTLSADRTRCEIIGNGGPLHAEGALELFLGNAGTAMRPLAAALCLGSNDIVLTGEPRMKERPIGHLVDALRLGGAKITYLEQENYPPLRLQGGFTGGNVDVDGSVSSQWLTALLMTAPLAPEDTVIRIKGDLVSKPYIDITLNLMKTFGVEIENQHYQQFVVKGGQSYQSPGTYLVEGDASSASYFLAAAAIKGGTVKVTGIGRNSMQGDIRFADVLEKMGATICWGDDYISCTRGELNAIDMDMNHIPDAAMTIATAALFAKGTTTLRNIYNWRVKETDRLFAMATELRKVGAEVEEGHDYIRITPPEKLNFAEIATYNDHRMAMCFSLVALSDTPVTILDPKCTAKTFPDYFEQLARISQAA 427
                                    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

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 '\|'

(no "SCOP Domain" information available for 1Q0J)

(no "CATH Domain" information available for 1Q0J)

(no "Pfam Domain" information available for 1Q0J)

Theoretical Model(hide GO term definitions)

Chain A (AROA_ECOLI | P0A6D3)

molecular function
	GO:0003866	3-phosphoshikimate 1-carboxyvinyltransferase activity	Catalysis of the reaction: 3-phosphoshikimate + phosphoenolpyruvate = 5-O-(1-carboxyvinyl)-3-phosphoshikimate + phosphate.
	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.
	GO:0016765	transferase activity, transferring alkyl or aryl (other than methyl) groups	Catalysis of the transfer of an alkyl or aryl (but not methyl) group from one compound (donor) to another (acceptor).
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: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.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

Chain A (AROA_ECO57 | P0A6D4)

molecular function
	GO:0003866	3-phosphoshikimate 1-carboxyvinyltransferase activity	Catalysis of the reaction: 3-phosphoshikimate + phosphoenolpyruvate = 5-O-(1-carboxyvinyl)-3-phosphoshikimate + phosphate.
	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.
	GO:0016765	transferase activity, transferring alkyl or aryl (other than methyl) groups	Catalysis of the transfer of an alkyl or aryl (but not methyl) group from one compound (donor) to another (acceptor).
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: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.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Theoretical Model
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	Sites
(no "Sites" information available for 1q0j)

	Cis Peptide Bonds
		Gly A:257 - Gly A:258	[ RasMol ]
		Pro A:149 - Pro A:150	[ RasMol ]

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	1q0j
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	AROA_ECOLI \| P0A6D3
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	2.5.1.19
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1eps	X-RAY DIFFRACTION STRUCTURE WITH 3 A RESOLUTION OF THE SAME PROTEIN - CA ATOMS ONLY
1g6s	X-RAY DIFFRACTION STRUCTURE WITH 1.5 A RESOLUTION OF THE SAME PROTEIN COMPLEXED WITH GPJ AND S3P
1g6t	X-RAY DIFFRACTION STRUCTURE WITH 1.6 A RESOLUTION OF THE SAME PROTEIN COMPLEXED WITH PO4 AND S3P
1q0i	ROTATIONAL-ECHO DOUBLE-RESONANCE NMR-RESTRAINED MODEL OF THE SAME COMPLEX WITH OPEN STRUCTURE COORDINATES OBTAINED FROM MONSANTO USED TO START MODEL BUILDING

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 12)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 2)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (9, 17)

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