3TI2 - JenaLib

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Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   1.90 ANGSTROM RESOLUTION CRYSTAL STRUCTURE OF N-TERMINAL DOMAIN 3-PHOSPHOSHIKIMATE 1-CARBOXYVINYLTRANSFERASE FROM VIBRIO CHOLERAE

Authors :   S. H. Light, G. Minasov, A. S. Halavaty, L. Shuvalova, L. Papazisi, W. F. Center For Structural Genomics Of Infectious Diseases (Csgi

Date :   19 Aug 11 (Deposition) - 31 Aug 11 (Release) - 31 Aug 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

Keywords :   Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Epsp Synthase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. H. Light, G. Minasov, A. S. Halavaty, L. Shuvalova, L. Papazisi, W. F. Anderson, Center For Structural Genomics Of Infectious Diseases (Csgid)
1. 90 Angstrom Resolution Crystal Structure Of N-Terminal Domain 3-Phosphoshikimate 1-Carboxyvinyltransferase From Vibrio Cholerae
To Be Published
PubMed: search

Molecule 1 - 3-PHOSPHOSHIKIMATE 1-CARBOXYVINYLTRANSFERASE
	Chains	:	A, B, C, D
	EC Number	:	2.5.1.19
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	MCSG7
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Fragment	:	N-TERMINAL DOMAIN
	Gene	:	AROA, VC_1732
	Organism Scientific	:	VIBRIO CHOLERAE O1 BIOVAR EL TOR
	Organism Taxid	:	243277
	Strain	:	N16961
	Synonym	:	5-ENOLPYRUVYLSHIKIMATE-3-PHOSPHATE SYNTHASE, EPSP SYNTHASE, EPSPS

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 13)

No.	Name	Count	Type	Full Name
1	CL	11	Ligand/Ion	CHLORIDE ION
2	PG4	2	Ligand/Ion	TETRAETHYLENE GLYCOL

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	PG4	-1	Ligand/Ion	TETRAETHYLENE GLYCOL

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	PG4	2	Ligand/Ion	TETRAETHYLENE GLYCOL

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	PG4	-1	Ligand/Ion	TETRAETHYLENE GLYCOL

Biological Unit 4 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	PG4	-1	Ligand/Ion	TETRAETHYLENE GLYCOL

Asymmetric Unit (13, 13)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ARG A:27 , SER A:171 , GLN A:172 , THR A:175	BINDING SITE FOR RESIDUE CL A 1
02	AC2	SOFTWARE	ARG A:27 , ARG A:100 , GLN A:172 , HOH A:279 , HOH A:285 , HOH A:760	BINDING SITE FOR RESIDUE CL A 244
03	AC3	SOFTWARE	ARG A:100 , ARG A:124	BINDING SITE FOR RESIDUE CL A 245
04	AC4	SOFTWARE	ARG B:100 , ARG B:124	BINDING SITE FOR RESIDUE CL B 1
05	AC5	SOFTWARE	ARG B:27 , ARG B:100 , GLN B:172 , HOH B:567	BINDING SITE FOR RESIDUE CL B 244
06	AC6	SOFTWARE	ARG B:40 , ARG B:65 , SER B:67 , THR B:72 , GLU B:74 , HOH B:626 , HOH B:818	BINDING SITE FOR RESIDUE PG4 B 245
07	AC7	SOFTWARE	GLY B:61 , ASN B:63 , HOH B:805	BINDING SITE FOR RESIDUE PG4 B 246
08	AC8	SOFTWARE	ARG C:27 , ARG C:100 , HOH C:282	BINDING SITE FOR RESIDUE CL C 1
09	AC9	SOFTWARE	ARG C:27 , SER C:171 , GLN C:172 , THR C:175	BINDING SITE FOR RESIDUE CL C 244
10	BC1	SOFTWARE	ARG C:100 , ARG C:124	BINDING SITE FOR RESIDUE CL C 245
11	BC2	SOFTWARE	ARG D:27 , SER D:171 , GLN D:172 , THR D:175 , HOH D:283	BINDING SITE FOR RESIDUE CL D 1
12	BC3	SOFTWARE	ARG D:27 , ARG D:100 , GLN D:172 , HOH D:260	BINDING SITE FOR RESIDUE CL D 244
13	BC4	SOFTWARE	ARG D:100 , ARG D:124 , HOH D:810	BINDING SITE FOR RESIDUE CL D 245

(no "SS Bond" information available for 3TI2)

Asymmetric Unit

No.	Residues
1	Pro A:149	-	Pro A:150
2	Pro B:149	-	Pro B:150
3	Pro C:149	-	Pro C:150
4	Pro D:149	-	Pro D:150

(no "SAP(SNP)/Variant" information available for 3TI2)

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EPSP_SYNTHASE_1	PS00104	EPSP synthase signature 1.	AROA_VIBCH	90-104	4	A:90-104 B:90-104 C:90-104 D:90-104

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EPSP_SYNTHASE_1	PS00104	EPSP synthase signature 1.	AROA_VIBCH	90-104	1	A:90-104 - - -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EPSP_SYNTHASE_1	PS00104	EPSP synthase signature 1.	AROA_VIBCH	90-104	1	- B:90-104 - -

Biological Unit 3 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EPSP_SYNTHASE_1	PS00104	EPSP synthase signature 1.	AROA_VIBCH	90-104	1	- - C:90-104 -

Biological Unit 4 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EPSP_SYNTHASE_1	PS00104	EPSP synthase signature 1.	AROA_VIBCH	90-104	1	- - - D:90-104

(no "Exon" information available for 3TI2)

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:227
 aligned with AROA_VIBCH | Q9KRB0 from UniProtKB/Swiss-Prot  Length:426

    Alignment length:227
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       
           AROA_VIBCH    17 NLPGSKSVSNRALLLAALASGTTRLTNLLDSDDIRHMLNALTKLGVNYRLSADKTTCEVEGLGQAFHTTQPLELFLGNAGTAMRPLAAALCLGQGDYVLTGEPRMKERPIGHLVDALRQAGAQIEYLEQENFPPLRIQGTGLQAGTVTIDGSISSQFLTAFLMSAPLAQGKVTIKIVGELVSKPYIDITLHIMEQFGVQVINHDYQEFVIPAGQSYVSPGQFLVEGD 243
               SCOP domains d3ti2a_ A: automated matches                                                                                                                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh..eeee.....eeeee...........eeee...hhhhhhhhhhhh.....eeeee.hhhhhhh.hhhhhhhhhhh..eeee........eeee......eeeeee...hhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhh....ee....eeee..........eee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------EPSP_SYNTHASE_1------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ti2 A  17 NLPGSKSVSNRALLLAALASGTTRLTNLLDSDDIRHMLNALTKLGVNYRLSADKTTCEVEGLGQAFHTTQPLELFLGNAGTAMRPLAAALCLGQGDYVLTGEPRMKERPIGHLVDALRQAGAQIEYLEQENFPPLRIQGTGLQAGTVTIDGSISSQFLTAFLMSAPLAQGKVTIKIVGELVSKPYIDITLHIMEQFGVQVINHDYQEFVIPAGQSYVSPGQFLVEGD 243
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236

Chain B from PDB  Type:PROTEIN  Length:225
 aligned with AROA_VIBCH | Q9KRB0 from UniProtKB/Swiss-Prot  Length:426

    Alignment length:225
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237     
           AROA_VIBCH    18 LPGSKSVSNRALLLAALASGTTRLTNLLDSDDIRHMLNALTKLGVNYRLSADKTTCEVEGLGQAFHTTQPLELFLGNAGTAMRPLAAALCLGQGDYVLTGEPRMKERPIGHLVDALRQAGAQIEYLEQENFPPLRIQGTGLQAGTVTIDGSISSQFLTAFLMSAPLAQGKVTIKIVGELVSKPYIDITLHIMEQFGVQVINHDYQEFVIPAGQSYVSPGQFLVEG 242
               SCOP domains d3ti2b_ B: automated matches                                                                                                                                                                                                      SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh...eee.....eeeee...........eeee...hhhhhhhhhhhh....eeeeee.hhhhhhh.hhhhhhhhhhh..eeee........eeeee.....eeeeee...hhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhh....eee...eeee..........eee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------EPSP_SYNTHASE_1------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ti2 B  18 LPGSKSVSNRALLLAALASGTTRLTNLLDSDDIRHMLNALTKLGVNYRLSADKTTCEVEGLGQAFHTTQPLELFLGNAGTAMRPLAAALCLGQGDYVLTGEPRMKERPIGHLVDALRQAGAQIEYLEQENFPPLRIQGTGLQAGTVTIDGSISSQFLTAFLMSAPLAQGKVTIKIVGELVSKPYIDITLHIMEQFGVQVINHDYQEFVIPAGQSYVSPGQFLVEG 242
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237

Chain C from PDB  Type:PROTEIN  Length:228
 aligned with AROA_VIBCH | Q9KRB0 from UniProtKB/Swiss-Prot  Length:426

    Alignment length:228
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235        
           AROA_VIBCH    16 VNLPGSKSVSNRALLLAALASGTTRLTNLLDSDDIRHMLNALTKLGVNYRLSADKTTCEVEGLGQAFHTTQPLELFLGNAGTAMRPLAAALCLGQGDYVLTGEPRMKERPIGHLVDALRQAGAQIEYLEQENFPPLRIQGTGLQAGTVTIDGSISSQFLTAFLMSAPLAQGKVTIKIVGELVSKPYIDITLHIMEQFGVQVINHDYQEFVIPAGQSYVSPGQFLVEGD 243
               SCOP domains d3ti2c_ C: automated matches                                                                                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh..eeee......eeee...........eeee...hhhhhhhhhhhh.....eeeee.hhhhhhh.hhhhhhhhhhh..eeee........eeee......eeeeee...hhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhh....eee...eeee..........eee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------EPSP_SYNTHASE_1------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3ti2 C  16 VNLPGSKSVSNRALLLAALASGTTRLTNLLDSDDIRHMLNALTKLGVNYRLSADKTTCEVEGLGQAFHTTQPLELFLGNAGTAMRPLAAALCLGQGDYVLTGEPRMKERPIGHLVDALRQAGAQIEYLEQENFPPLRIQGTGLQAGTVTIDGSISSQFLTAFLMSAPLAQGKVTIKIVGELVSKPYIDITLHIMEQFGVQVINHDYQEFVIPAGQSYVSPGQFLVEGD 243
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235

Chain D from PDB  Type:PROTEIN  Length:226
 aligned with AROA_VIBCH | Q9KRB0 from UniProtKB/Swiss-Prot  Length:426

    Alignment length:226
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236      
           AROA_VIBCH    17 NLPGSKSVSNRALLLAALASGTTRLTNLLDSDDIRHMLNALTKLGVNYRLSADKTTCEVEGLGQAFHTTQPLELFLGNAGTAMRPLAAALCLGQGDYVLTGEPRMKERPIGHLVDALRQAGAQIEYLEQENFPPLRIQGTGLQAGTVTIDGSISSQFLTAFLMSAPLAQGKVTIKIVGELVSKPYIDITLHIMEQFGVQVINHDYQEFVIPAGQSYVSPGQFLVEG 242
               SCOP domains d3ti2d_ D: automated matches                                                                                                                                                                                                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh..eeee......eeee...........eeee...hhhhhhhhhhhh.....eeeee.hhhhhhh.hhhhhhhhhhh..eeee........eeee......eeeeee...hhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhh....eee...eeee..........eee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------EPSP_SYNTHASE_1------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ti2 D  17 NLPGSKSVSNRALLLAALASGTTRLTNLLDSDDIRHMLNALTKLGVNYRLSADKTTCEVEGLGQAFHTTQPLELFLGNAGTAMRPLAAALCLGQGDYVLTGEPRMKERPIGHLVDALRQAGAQIEYLEQENFPPLRIQGTGLQAGTVTIDGSISSQFLTAFLMSAPLAQGKVTIKIVGELVSKPYIDITLHIMEQFGVQVINHDYQEFVIPAGQSYVSPGQFLVEG 242
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236

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 Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: IF3-like (127)

Superfamily: EPT/RTPC-like (82)

Family: Enolpyruvate transferase, EPT (68)

Protein domain: automated matches (15)

Vibrio cholerae [TaxId: 243277] (1)

1a	d3ti2a_	A:
1b	d3ti2b_	B:
1c	d3ti2c_	C:
1d	d3ti2d_	D:

(no "CATH Domain" information available for 3TI2)

(no "Pfam Domain" information available for 3TI2)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (AROA_VIBCH | Q9KRB0)

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.

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	Cis Peptide Bonds
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		Pro B:149 - Pro B:150	[ RasMol ]
		Pro C:149 - Pro C:150	[ RasMol ]
		Pro D:149 - Pro D:150	[ RasMol ]

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	3ti2
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	AROA_VIBCH \| Q9KRB0	:	3nvs

3nvs	FULL LENGTH PROTEIN IN COMPLEX WITH SHIKIMATE-3-PHOSPHATE AND GLYPHOSATE RELATED ID: IDP90626 RELATED DB: TARGETDB

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 13)

Sites (13, 13)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 4)

Exons (0, 0)

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Gene Ontology (8, 8)

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