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Asym./Biol. Unit (Jmol Viewer)

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Title :   STRUCTURE OF SALMONELLA TYPHI TYPE I DEHYDROQUINASE IRREVERSIBLE INHIBITED WITH A 1,3,4-TRIHYDROXYCICLOHEXANE-1-CARBOXYLIC ACID DERIVATIVE

Authors :   J. M. Otero, A. L. Llamas-Saiz, L. Tizon, M. Maneiro, E. Lence, S. Poza, H A. R. Hawkins, B. Blanco, A. Sedes, A. Peon, C. Gonzalez-Bello, M. J. Va

Date :   15 Jan 14 (Deposition) - 05 Nov 14 (Release) - 14 Jan 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.40

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

Keywords :   Type I Dehydroquinase, Lyase, Inhibitor, Shikimis Acid Pathway, Substrate Specificity (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. Tizon, M. Maneiro, A. Peon, J. M. Otero, E. Lence, S. Poza, M. J. Van Raaij, P. Thompson, A. R. Hawkins, C. Gonzalez-Bello
Irreversible Covalent Modification Of Type I Dehydroquinase With A Stable Schiff Base.
Org. Biomol. Chem. V. 13 706 2015
PubMed-ID: 25370445 | Reference-DOI: 10.1039/C4OB01782J

Molecule 1 - 3-DEHYDROQUINATE DEHYDRATASE
	Atcc	:	19430
	Chains	:	A, B
	EC Number	:	4.2.1.10
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	SALMONELLA ENTERICA SUBSP. ENTERICA SEROVAR TYPHI
	Organism Taxid	:	90370
	Synonym	:	3-DEHYDROQUINASE, TYPE I DHQASE

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 5)

No.	Name	Count	Type	Full Name
1	CL	3	Ligand/Ion	CHLORIDE ION
2	LI	1	Ligand/Ion	LITHIUM ION
3	WPL	1	Ligand/Ion	(1S,3R,4R,5R)-3-(AMINOMETHYL)-1,4,5-TRIHYDROXYCYCLOHEXANECARBOXYLIC ACID

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER B:21 , GLU B:46 , ARG B:48 , ARG B:82 , LYS B:170 , MET B:205 , ARG B:213 , PHE B:225 , SER B:232 , ALA B:233 , GLN B:236 , HOH B:2129	BINDING SITE FOR RESIDUE WPL B 301
2	AC2	SOFTWARE	HIS A:96 , THR A:99 , TYR B:130	BINDING SITE FOR RESIDUE CL A1253
3	AC3	SOFTWARE	ARG A:159 , GLN A:162 , HOH A:2181 , HOH A:2310 , HOH A:2313	BINDING SITE FOR RESIDUE CL A1254
4	AC4	SOFTWARE	LYS A:170 , LI A:1256 , HOH A:2358 , HOH A:2360 , HOH A:2393	BINDING SITE FOR RESIDUE CL A1255
5	AC5	SOFTWARE	ARG A:48 , ARG A:82 , LYS A:170 , CL A:1255 , HOH A:2078 , HOH A:2151 , HOH A:2210	BINDING SITE FOR RESIDUE LI A1256

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

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

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

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DEHYDROQUINASE_I	PS01028	Dehydroquinase class I active site.	AROD_SALTI	114-144	2	A:114-144 B:114-144

(no "Exon" information available for 4CLM)

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
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Chain A from PDB  Type:PROTEIN  Length:243
 aligned with AROD_SALTI | P24670 from UniProtKB/Swiss-Prot  Length:252

    Alignment length:251
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251 
           AROD_SALTI     2 KTVTVKNLIIGEGMPKIIVSLMGRDINSVKAEALAYREATFDILEWRVDHFMDIASTQSVLTAARVIRDAMPDIPLLFTFRSAKEGGEQTITTQHYLTLNRAAIDSGLVDMIDLELFTGDADVKATVDYAHAHNVYVVMSNHDFHQTPSAEEMVLRLRKMQALGADIPKIAVMPQSKHDVLTLLTATLEMQQHYADRPVITMSMAKEGVISRLAGEVFGSAATFGAVKQASAPGQIAVNDLRSVLMILHNA 252
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee..eee.....eeeeee...hhhhhhhhhhhhh.....eeeee.hhh....hhhhhhhhhhhhhhhh....eeee..hhhhh.....hhhhhhhhhhhhhhh....eeeee...hhhhhhhhhhhhhhh..eeeeeeee.....hhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhhhhhhh.....eeeehhhhhhhhhhhhhhhh..eee...--------.hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------DEHYDROQUINASE_I  PDB: A:114-14------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4clm A   2 KTVTVKNLIIGEGMPKIIVSLMGRDINSVKAEALAYREATFDILEWRVDHFMDIASTQSVLTAARVIRDAMPDIPLLFTFRSAKEGGEQTITTQHYLTLNRAAIDSGLVDMIDLELFTGDADVKATVDYAHAHNVYVVMSNHDFHQTPSAEEMVLRLRKMQALGADIPKIAVMPQSKHDVLTLLTATLEMQQHYADRPVITMSMAKEGVISRLAGEVFGSAATFGAV--------IAVNDLRSVLMILHNA 252
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221      |  -     | 241       251 
                                                                                                                                                                                                                                                            228      237

Chain B from PDB  Type:PROTEIN  Length:251
 aligned with AROD_SALTI | P24670 from UniProtKB/Swiss-Prot  Length:252

    Alignment length:251
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251 
           AROD_SALTI     2 KTVTVKNLIIGEGMPKIIVSLMGRDINSVKAEALAYREATFDILEWRVDHFMDIASTQSVLTAARVIRDAMPDIPLLFTFRSAKEGGEQTITTQHYLTLNRAAIDSGLVDMIDLELFTGDADVKATVDYAHAHNVYVVMSNHDFHQTPSAEEMVLRLRKMQALGADIPKIAVMPQSKHDVLTLLTATLEMQQHYADRPVITMSMAKEGVISRLAGEVFGSAATFGAVKQASAPGQIAVNDLRSVLMILHNA 252
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee..eee.....eeeeee...hhhhhhhhhhhhh.....eeeee.hhh....hhhhhhhhhhhhhhhh....eeee..hhhhh.....hhhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhh..eeeeeeee.....hhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhhhhhhh.....eeee....hhhhhhhhhhhh..eeee...........hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------DEHYDROQUINASE_I  PDB: B:114-14------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4clm B   2 KTVTVKNLIIGEGMPKIIVSLMGRDINSVKAEALAYREATFDILEWRVDHFMDIASTQSVLTAARVIRDAMPDIPLLFTFRSAKEGGEQTITTQHYLTLNRAAIDSGLVDMIDLELFTGDADVKATVDYAHAHNVYVVMSNHDFHQTPSAEEMVLRLRKMQALGADIPKIAVMPQSKHDVLTLLTATLEMQQHYADRPVITMSMAKEGVISRLAGEVFGSAATFGAVKQASAPGQIAVNDLRSVLMILHNA 252
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251

Legend:		→ Mismatch	(orange background)
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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 4CLM)

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

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (AROD_SALTI | P24670)

molecular function
	GO:0003855	3-dehydroquinate dehydratase activity	Catalysis of the reaction: 3-dehydroquinate = 3-dehydroshikimate + H(2)O.
	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:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
biological process
	GO:0046279	3,4-dihydroxybenzoate biosynthetic process	The chemical reactions and pathways resulting in the formation of 3,4-dihydroxybenzoate.
	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.

Asymmetric/Biological Unit
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(no "Cis Peptide Bonds" information available for 4clm)

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	AROD_SALTI \| P24670	:	1gqn 1l9w 1qfe 4cnn 4cno 4cnp 4uio

4ckw	STRUCTURE OF THE MYCOBACTERIUM TUBERCULOSIS TYPE II DEHYDROQUINASE N12S MUTANT (CRYSTAL FORM 1)
4ckx	STRUCTURE OF THE MYCOBACTERIUM TUBERCULOSIS TYPE II DEHYDROQUINASE N12S MUTANT (CRYSTAL FORM 2)
4cky	STRUCTURE OF THE MYCOBACTERIUM TUBERCULOSIS TYPE II DEHYDROQUINASE INHIBITED BY A 3-DEHYDROQUINIC ACID DERIVATIVE
4ckz	STRUCTURE OF THE MYCOBACTERIUM TUBERCULOSIS TYPE II DEHYDROQUINASE D88N MUTANT
4cl0	STRUCTURE OF THE MYCOBACTERIUM TUBERCULOSIS TYPE II DEHYDROQUINASE INHIBITED BY A 3-DEHYDROQUINIC ACID DERIVATIVE

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Ligands, Modified Residues, Ions (3, 5)

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Gene Ontology (7, 7)

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