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Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF ABSCISIC ACID-BOUND PYL2 IN COMPLEX WITH HAB1

Authors :   X. E. Zhou, K. Melcher, F. -F. Soon, L. -M. Ng, Y. Xu, K. M. Suino-Powell, A J. Li, H. E. Xu

Date :   20 Oct 09 (Deposition) - 08 Dec 09 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.95

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

Keywords :   Phytohormone Receptor, Pyr/Pyl/Rcar, Abscisic Acid Signaling, Type 2C Protein Phosphatases, Pyl2, Hab1, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. Melcher, L. -M. Ng, X. E. Zhou, F. -F. Soon, Y. Xu, K. -M. Suino-Powell S. -Y. Park, J. J. Weiner, H. Fujii, V. Chinnusamy, A. Kovach, J. Li, Y. Wang, J. Y. Li, F. C. Peterson, D. R. Jensen, E. -L. Yong, B. F. Volkman S. R. Cutler, J. -K. Zhu, H. E. Xu
Agate-Latch-Lock Mechanism For Hormone Signalling By Abscisic Acid Receptors
Nature V. 462 602 2009
PubMed: search

Molecule 1 - PUTATIVE UNCHARACTERIZED PROTEIN AT2G26040
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET24A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	AT2G26040
	Organism Common	:	MOUSE-EAR CRESS,THALE-CRESS
	Organism Scientific	:	ARABIDOPSIS THALIANA
	Organism Taxid	:	3702

Molecule 2 - PROTEIN PHOSPHATASE 2C 16
	Chains	:	B
	EC Number	:	3.1.3.16
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET24A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	HAB1, P2C-HA, AT1G72770, F28P22.4
	Organism Common	:	MOUSE-EAR CRESS,THALE-CRESS
	Organism Scientific	:	ARABIDOPSIS THALIANA
	Organism Taxid	:	3702
	Synonym	:	ATPP2C16, PROTEIN PHOSPHATASE 2C HAB1, PP2C HAB1, ATP2C-HA, PROTEIN HYPERSENSITIVE TO ABA 1

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 4)

No.	Name	Count	Type	Full Name
1	A8S	1	Ligand/Ion	(2Z,4E)-5-[(1S)-1-HYDROXY-2,6,6-TRIMETHYL-4-OXOCYCLOHEX-2-EN-1-YL]-3-METHYLPENTA-2,4-DIENOIC ACID
2	MG	3	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HOH A:2 , HOH A:3 , LYS A:64 , PHE A:66 , VAL A:87 , ALA A:93 , SER A:96 , PHE A:112 , HIS A:119 , LEU A:121 , TYR A:124 , PHE A:165 , ASN A:173 , HOH A:204 , HOH A:209 , HOH A:217	BINDING SITE FOR RESIDUE A8S A 189
2	AC2	SOFTWARE	HOH B:33 , HOH B:120 , ASP B:243 , ASP B:432 , ASP B:492	BINDING SITE FOR RESIDUE MG B 997
3	AC3	SOFTWARE	GLU B:203 , ASP B:204 , ASP B:243 , GLY B:244 , ASN B:493	BINDING SITE FOR RESIDUE MG B 998
4	AC4	SOFTWARE	ASP B:243 , ASP B:346 , SER B:347 , SER B:431 , ASP B:432	BINDING SITE FOR RESIDUE MG B 999

(no "SS Bond" information available for 3KB3)

Asymmetric/Biological Unit

No.	Residues
1	Lys B:406	-	Pro B:407
2	Ala B:460	-	Pro B:461

(no "SAP(SNP)/Variant" information available for 3KB3)

Asymmetric/Biological Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PPM_2	PS51746	PPM-type phosphatase domain profile.	P2C16_ARATH	189-501	1	B:189-501
2	PPM_1	PS01032	PPM-type phosphatase domain signature.	P2C16_ARATH	238-246	1	B:238-246

(no "Exon" information available for 3KB3)

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
	(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:176
 aligned with PYL2_ARATH | O80992 from UniProtKB/Swiss-Prot  Length:190

    Alignment length:176
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182      
           PYL2_ARATH    13 EEQKTLEPVIKTYHQFEPDPTTCTSLITQRIHAPASVVWPLIRRFDNPERYKHFVKRCRLISGDGDVGSVREVTVISGLPASTSTERLEFVDDDHRVLSFRVVGGEHRLKNYKSVTSVNEFLNQDSGKVYTVVLESYTVDIPEGNTEEDTKMFVDTVVKLNLQKLGVAATSAPMHD 188
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------Polyketide_cyc2-3kb3A01 A:34-181                                                                                                                    ------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh.......eeeeeeeeee..hhhhhhhhhhh..hhhhh...eeeeeeee.......eeeeee.......eeeeeeeeee....eeeeeeee........eeeeeeeeee......eeeeeeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3kb3 A  13 SEQKTLEPVIKTYHQFEPDPTTCTSLITQRIHAPASVVWPLIRRFDNPERYKHFVKRCRLISGDGDVGSVREVTVISGLPASTSTERLEFVDDDHRVLSFRVVGGEHRLKNYKSVTSVNEFLNQDSGKVYTVVLESYTVDIPEGNTEEDTKMFVDTVVKLNLQKLGVAATSAPMHD 188
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182

Chain B from PDB  Type:PROTEIN  Length:294
 aligned with P2C16_ARATH | Q9CAJ0 from UniProtKB/Swiss-Prot  Length:511

    Alignment length:321
                                   195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505 
          P2C16_ARATH   186 CIPLWGTVSIQGNRSEMEDAFAVSPHFLKLPIKMLMGDHEGMSPSLTHLTGHFFGVYDGHGGHKVADYCRDRLHFALAEEIERIKDELCKRNTGEGRQVQWDKVFTSCFLTVDGEIEGKIGRAVVGSSDKVLEAVASETVGSTAVVALVCSSHIVVSNCGDSRAVLFRGKEAMPLSVDHKPDREDEYARIENAGGKVIQWQGARVFGVLAMSRSIGDRYLKPYVIPEPEVTFMPRSREDECLILASDGLWDVMNNQEVCEIARRRILMWHKKNGAPPLAERGKGIDPACQAAADYLSMLALQKGSKDNISIIVIDLKAQRK 506
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----PP2C-3kb3B01 B:190-494                                                                                                                                                                                                                                                                                           ------------ Pfam domains
         Sec.struct. author ....eeeeee........eeeeeeeeeee......-------------.eeeeeeeeeee..hhhhhhhhhhhhhhhhhh...-------------.hhhhhhhhhhhhhhhhhhhh........-..............ee.eeeeee...eeeeeee...eeeeee..eeee........hhhhhhhhhhh...eee...eee.........ee.hhhh.......eeeeee....eeeeeeehhhhhh..hhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhh.....eeeeeee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---PPM_2  PDB: B:189-501 UniProt: 189-501                                                                                                                                                                                                                                                                                   ----- PROSITE (1)
                PROSITE (2) ----------------------------------------------------PPM_1    -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3kb3 B 186 CIPLWGTVSIQGNRSEMEDAFAVSPHFLKLPIKML-------------LTGHFFGVYDGHGGHKVADYCRDRLHFALAEEIER-------------RQVQWDKVFTSCFLTVDGEIEGKIGRAVV-SSDKVLEAVASETVGSTAVVALVCSSHIVVSNCGDSRAVLFRGKEAMPLSVDHKPDREDEYARIENAGGKVIQWQGARVFGVLAMSRSIGDRYLKPYVIPEPEVTFMPRSREDECLILASDGLWDVMNNQEVCEIARRRILMWHKKNGAPPLAERGKGIDPACQAAADYLSMLALQKGSKDNISIIVIDLKAQRK 506
                                   195       205       215    |    -       235       245       255       265  |      -      |285       295       305    | |315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505 
                                                            220           234                               268           282                         310 |                                                                                                                                                                                                  
                                                                                                                                                        312

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 3KB3)

(no "CATH Domain" information available for 3KB3)

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Bet_V_1_like (93)

Family: Polyketide_cyc2 (26)

Arabidopsis thaliana (Mouse-ear cress) (24)

Polyketide_cyc2-3kb3A01

A:34-181

Clan: PP2C (22)

Family: PP2C (13)

Arabidopsis thaliana (Mouse-ear cress) (8)

PP2C-3kb3B01

B:190-494

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (PYL2_ARATH | O80992)

molecular function
	GO:0010427	abscisic acid binding	Interacting selectively and non-covalently with abscisic acid, plant hormones that regulate aspects of plant growth.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0042803	protein homodimerization activity	Interacting selectively and non-covalently with an identical protein to form a homodimer.
	GO:0004864	protein phosphatase inhibitor activity	Stops, prevents or reduces the activity of a protein phosphatase, an enzyme that hydrolyzes phosphate groups from phosphorylated proteins.
	GO:0004872	receptor activity	Combining with an extracellular or intracellular messenger to initiate a change in cell activity.
biological process
	GO:0009738	abscisic acid-activated signaling pathway	A series of molecular signals generated by the binding of the plant hormone abscisic acid (ABA) to a receptor, and ending with modulation of a cellular process, e.g. transcription.
	GO:0043086	negative regulation of catalytic activity	Any process that stops or reduces the activity of an enzyme.
	GO:0080163	regulation of protein serine/threonine phosphatase activity	Any process that modulates the frequency, rate or extent of protein serine/threonine phosphatase activity: catalysis of the reaction: protein serine/threonine phosphate + H2O = protein serine/threonine + phosphate.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Chain B (P2C16_ARATH | Q9CAJ0)

molecular function
	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:0043169	cation binding	Interacting selectively and non-covalently with cations, charged atoms or groups of atoms with a net positive charge.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0004721	phosphoprotein phosphatase activity	Catalysis of the reaction: a phosphoprotein + H2O = a protein + phosphate. Together with protein kinases, these enzymes control the state of phosphorylation of cell proteins and thereby provide an important mechanism for regulating cellular activity.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0004722	protein serine/threonine phosphatase activity	Catalysis of the reaction: protein serine phosphate + H2O = protein serine + phosphate, and protein threonine phosphate + H2O = protein threonine + phosphate.
biological process
	GO:0009738	abscisic acid-activated signaling pathway	A series of molecular signals generated by the binding of the plant hormone abscisic acid (ABA) to a receptor, and ending with modulation of a cellular process, e.g. transcription.
	GO:0006470	protein dephosphorylation	The process of removing one or more phosphoric residues from a protein.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Ala B:460 - Pro B:461	[ RasMol ]
		Lys B:406 - Pro B:407	[ RasMol ]

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

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