2J66 - JenaLib

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Title :   STRUCTURAL CHARACTERISATION OF BTRK DECARBOXYLASE FROM BUTIROSIN BIOSYNTHESIS

Authors :   B. Popovic, Y. Li, D. Y. Chirgadze, T. L. Blundell, J. B. Spencer

Date :   26 Sep 06 (Deposition) - 28 Sep 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.65

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

Keywords :   Butirosin, Decarboxylase, Ahba Biosynthesis, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. Popovic, Y. Li, D. Y. Chirgadze, T. L. Blundell, J. B. Spencer
Structural Characterisation Of Btrk Decarboxylase From Bacillus Circulans Butirosin Biosynthesis
To Be Published
PubMed: search

Molecule 1 - BTRK
	Chains	:	A
	EC Number	:	4.1.-.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28A
	Expression System Taxid	:	562
	Organism Scientific	:	BACILLUS CIRCULANS
	Organism Taxid	:	1397
	Other Details	:	MONOMER (PRESENT IN ASYMMETRIC UNIT) BUT ACTIVE AS CATALYTIC DIMER (GENERATED BY CRYSTALLOGRAPHIC 2-FOLD AXIS)
	Synonym	:	DECARBOXYLASE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 2)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
2	PLP	1	Ligand/Ion	PYRIDOXAL-5'-PHOSPHATE

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
2	PLP	2	Ligand/Ion	PYRIDOXAL-5'-PHOSPHATE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:187 , THR A:188 , ILE A:198 , SER A:201 , LEU A:225 , GLY A:227 , HOH A:2119	BINDING SITE FOR RESIDUE EDO A1418
2	AC2	SOFTWARE	SER A:47 , LYS A:49 , GLU A:68 , SER A:91 , ARG A:138 , HIS A:185 , TYR A:187 , THR A:190 , GLY A:228 , GLU A:269 , SER A:270 , GLY A:271 , ARG A:272 , CYS A:346 , TYR A:375 , HOH A:2159 , HOH A:2229 , HOH A:2230 , HOH A:2231	BINDING SITE FOR RESIDUE PLP A1419

(no "SS Bond" information available for 2J66)

Asymmetric Unit

No.	Residues
1	Thr A:17	-	Pro A:18

(no "SAP(SNP)/Variant" information available for 2J66)

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ODR_DC_2_2	PS00879	Orn/DAP/Arg decarboxylases family 2 signature 2.	BTRK_BACCI	217-230	1	A:217-230

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ODR_DC_2_2	PS00879	Orn/DAP/Arg decarboxylases family 2 signature 2.	BTRK_BACCI	217-230	2	A:217-230

(no "Exon" information available for 2J66)

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
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Chain A from PDB  Type:PROTEIN  Length:391
 aligned with BTRK_BACCI | Q2L4H3 from UniProtKB/Swiss-Prot  Length:428

    Alignment length:415
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413     
           BTRK_BACCI     4 DQAEITALTKRFETPFYLYDGDFIEAHYRQLRSRTNPAIQFYLSLKANNNIHLAKLFRQWGLGVEVASAGELALARHAGFSAENIIFSGPGKKRSELEIAVQSGIYCIIAESVEELFYIEELAEKENKTARVAIRINPDKSFGSTAIKMGGVPRQFGMDESMLDAVMDAVRSLQFTKFIGIHVYTGTQNLNTDSIIESMKYTVDLGRNIYERYGIVCECINLGGGFGVPYFSHEKALDIGKITRTVSDYVQEARDTRFPQTTFIIESGRYLLAQAAVYVTEVLYRKASKGEVFVIVDGGMHHHAASTFRGRSMRSNYPMEYIPVREDSGRRELEKVTIAGPLCTPEDCLGKDVHVPALYPGDLVCVLNSGAYGLSFSPVHFLGHPTPIEILKRNGSYELIRRKGTADDIVATQLQ 418
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhh...eeeeehhhhhhhhhhhhhh....eeeeee.hhh.hhhhhhhhhhh..eeee.hhhhhhhhhhh..hhh.eee.....hhhhhhhhhhhh..eeee.hhhhhhhhhhhhhhhh..eeeeeeee.....--.................hhhhhhhhhhhh..eeeeeee........hhhhhhhhhhhhhhhhhhhhhhhh....eee..........--....hhhhhhhhhhhhhhhhhh......eeeeeehhhhhh..eeeeeeeeeeeee..eeeeee..........-----------.eeee.---------.eeeeee........eeeeeeee.......eeee......hhhhh..hhhhh...eeeeee..eeeeee...hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ODR_DC_2_2    -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2j66 A   4 DQAEITALTKRFETPFYLYDGDFIEAHYRQLRSRTNPAIQFYLSLKANNNIHLAKLFRQWGLGVEVASAGELALARHAGFSAENIIFSGPGKKRSELEIAVQSGIYCIIAESVEELFYIEELAEKENKTARVAIRINPDKSF--TAIKMGGVPRQFGMDESMLDAVMDAVRSLQFTKFIGIHVYTGTQNLNTDSIIESMKYTVDLGRNIYERYGIVCECINLGGGFGVPYF--EKALDIGKITRTVSDYVQEARDTRFPQTTFIIESGRYLLAQAAVYVTEVLYRKASKGEVFVIVDGGMHHHAAS-----------PMEYIP---------LEKVTIAGPLCTPEDCLGKDVHVPALYPGDLVCVLNSGAYGLSFSPVHFLGHPTPIEILKRNGSYELIRRKGTADDIVATQLQ 418
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143 |  |  153       163       173       183       193       203       213       223       233|  |   243       253       263       273       283       293       303     |   -       323  |      -  |    343       353       363       373       383       393       403       413     
                                                                                                                                                                       145  |                                                                                   234  |                                                                     309         321  326       336                                                                                  
                                                                                                                                                                          148                                                                                      237

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 2J66)

(no "CATH Domain" information available for 2J66)

(no "Pfam Domain" information available for 2J66)

Asymmetric Unit(hide GO term definitions)

Chain A (BTRK_BACCI | Q2L4H3)

molecular function
	GO:0016831	carboxy-lyase activity	Catalysis of the nonhydrolytic addition or removal of a carboxyl group to or from a compound.
	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:0008836	diaminopimelate decarboxylase activity	Catalysis of the reaction: meso-2,6-diaminopimelate + H(+) = L-lysine + CO(2).
	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.
	GO:0042803	protein homodimerization activity	Interacting selectively and non-covalently with an identical protein to form a homodimer.
biological process
	GO:0017000	antibiotic biosynthetic process	The chemical reactions and pathways resulting in the formation of an antibiotic, a substance produced by or derived from certain fungi, bacteria, and other organisms, that can destroy or inhibit the growth of other microorganisms.
	GO:0009089	lysine biosynthetic process via diaminopimelate	The chemical reactions and pathways resulting in the formation of lysine, via the intermediate diaminopimelate.

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		Thr A:17 - Pro A:18	[ RasMol ]

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	2j66
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Description

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Ligands, Modified Residues, Ions (2, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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