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Title :   CRYSTAL STRUCTURE OF DUAL SPECIFICITY PROTEIN PHOSPHATASE 23 FROM HOMO SAPIENS IN COMPLEX WITH LIGAND MALATE ION

Authors :   R. Agarwal, S. K. Burley, S. Swaminathan, New York Sgx Research Center For Structural Genomics (Nysgxrc)

Date :   04 Oct 06 (Deposition) - 17 Oct 06 (Release) - 21 Oct 08 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.93

Chains :   Asym./Biol. Unit : A

Keywords :   Dusp23, Vhz, Ldp-3, Dual Specicity Protein Phosphatase 23, Dus23_human, Malate, 8673A, Structural Genomics, Psi, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. Agarwal, S. K. Burley, S. Swaminathan
Structure Of Human Dual Specificity Protein Phosphatase 23, Vhz, Enzyme-Substrate/Product Complex.
J. Biol. Chem. V. 283 8946 2008
PubMed-ID: 18245086 | Reference-DOI: 10.1074/JBC.M708945200
(for further references see the PDB file header)

Molecule 1 - DUAL SPECIFICITY PROTEIN PHOSPHATASE 23
	Chains	:	A
	EC Number	:	3.1.3.48, 3.1.3.16
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PSGX4
	Expression System Strain	:	BL21(DE3)RIL
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	DUSP23
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	LOW MOLECULAR MASS DUAL SPECIFICITY PHOSPHATASE 3, LDP-3, VH1-LIKE PHOSPHATASE Z

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 2)

No.	Name	Count	Type	Full Name
1	MLT	1	Ligand/Ion	MALATE ION
2	MSE	1	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PHE A:66 , CYS A:95 , ALA A:96 , LEU A:97 , GLY A:98 , PHE A:99 , GLY A:100 , ARG A:101 , TYR A:136 , LYS A:140 , HOH A:519	BINDING SITE FOR RESIDUE MLT A 501

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

(no "Cis Peptide Bond" information available for 2IMG)

Asymmetric/Biological Unit (2, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_051756	E	124	V	DUS23_HUMAN	Polymorphism	11544443	A	E	124	V
2	UniProt	VAR_023199	G	131	S	DUS23_HUMAN	Polymorphism	1129923	A	G	131	S

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric/Biological Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TYR_PHOSPHATASE_2	PS50056	Tyrosine specific protein phosphatases family profile.	DUS23_HUMAN	75-140	1	A:75-140
2	TYR_PHOSPHATASE_1	PS00383	Tyrosine specific protein phosphatases active site.	DUS23_HUMAN	93-103	1	A:93-103

Asymmetric/Biological Unit (2, 2)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000368109	1a	ENSE00001446340	chr1:159750722-159750790	69	DUS23_HUMAN	-	0	0	-	-
1.2b	ENST00000368109	2b	ENSE00001446339	chr1:159750889-159751157	269	DUS23_HUMAN	1-89	89	1	A:2-89	88
1.3	ENST00000368109	3	ENSE00001446338	chr1:159751943-159752333	391	DUS23_HUMAN	90-150	61	1	A:90-150	61

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:149
 aligned with DUS23_HUMAN | Q9BVJ7 from UniProtKB/Swiss-Prot  Length:150

    Alignment length:149
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141         
          DUS23_HUMAN     2 GVQPPNFSWVLPGRLAGLALPRLPAHYQFLLDLGVRHLVSLTERGPPHSDSCPGLTLHRLRIPDFCPPAPDQIDRFVQIVDEANARGEAVGVHCALGFGRTGTMLACYLVKERGLAAGDAIAEIRRLRPGSIETYEQEKAVFQFYQRTK 150
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2imgA00 A:2-150 Protein tyrosine phosphatase superfamily                                                                                              CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeee...eeee....hhhhhhhhhhh.eeeeee.......hhhhh...eeee.........hhhhhhhhhhhhhhhhhh..eeeee.....hhhhhhhhhhhhhhhh.hhhhhhhhhhhhh.....hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------V------S------------------- SAPs(SNPs)
                PROSITE (1) -------------------------------------------------------------------------TYR_PHOSPHATASE_2  PDB: A:75-140 UniProt: 75-140                  ---------- PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------TYR_PHOSPHA----------------------------------------------- PROSITE (2)
               Transcript 1 Exon 1.2b  PDB: A:2-89 UniProt: 1-89 [INCOMPLETE]                                       Exon 1.3  PDB: A:90-150 UniProt: 90-150                       Transcript 1
                 2img A   2 GVQPPNFSWVLPGRLAGLALPRLPAHYQFLLDLGVRHLVSLTERGPPHSDSCPGLTLHRLRIPDFCPPAPDQIDRFVQIVDEANARGEAVGVHCALGFGRTGTmLACYLVKERGLAAGDAIAEIRRLRPGSIETYEQEKAVFQFYQRTK 150
                                    11        21        31        41        51        61        71        81        91       101   |   111       121       131       141         
                                                                                                                                 105-MSE

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 2IMG)

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Complex (3881)

Topology: Protein-Tyrosine Phosphatase; Chain A (262)

Homologous Superfamily: Protein tyrosine phosphatase superfamily (228)

Human (Homo sapiens) (196)

2imgA00

A:2-150

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (DUS23_HUMAN | Q9BVJ7)

molecular function
	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:0016791	phosphatase activity	Catalysis of the hydrolysis of phosphoric monoesters, releasing inorganic phosphate.
	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.
	GO:0004725	protein tyrosine phosphatase activity	Catalysis of the reaction: protein tyrosine phosphate + H2O = protein tyrosine + phosphate.
	GO:0008138	protein tyrosine/serine/threonine phosphatase activity	Catalysis of the reactions: protein serine + H2O = protein serine + phosphate; protein threonine phosphate + H2O = protein threonine + phosphate; and protein tyrosine phosphate + H2O = protein tyrosine + phosphate.
biological process
	GO:0016311	dephosphorylation	The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
	GO:0035335	peptidyl-tyrosine dephosphorylation	The removal of phosphoric residues from peptidyl-O-phospho-tyrosine to form peptidyl-tyrosine.
	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:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	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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