2Y96 - JenaLib

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Title :   STRUCTURE OF HUMAN DUAL-SPECIFICITY PHOSPHATASE 27

Authors :   G. T. Lountos, J. E. Tropea, D. S. Waugh

Date :   11 Feb 11 (Deposition) - 27 Apr 11 (Release) - 01 Jun 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.38

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

Keywords :   Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. T. Lountos, J. E. Tropea, D. S. Waugh
Structure Of Human Dual-Specificity Phosphatase At 2. 38A Resolution
Acta Crystallogr. , Sect. D V. 67 471 2011
PubMed-ID: 21543850 | Reference-DOI: 10.1107/S090744491100970X

Molecule 1 - DUAL SPECIFICITY PHOSPHATASE DUPD1
	Chains	:	A, B
	EC Number	:	3.1.3.16, 3.1.3.48
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PJT154
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Variant	:	ROSETTA2
	Fragment	:	RESIDUES 2-220
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	HUMAN DUAL-SPECIFICITY PHOSPHATASE 27

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 7)

No.	Name	Count	Type	Full Name
1	SO4	7	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 14)

No.	Name	Count	Type	Full Name
1	SO4	14	Ligand/Ion	SULFATE ION

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:115 , CYS A:147 , VAL A:148 , MET A:149 , GLY A:150 , ARG A:151 , SER A:152 , ARG A:153 , HOH A:2037 , HOH A:2075	BINDING SITE FOR RESIDUE SO4 A1207
2	AC2	SOFTWARE	THR A:53 , HIS A:54 , VAL A:55	BINDING SITE FOR RESIDUE SO4 A1208
3	AC3	SOFTWARE	ARG A:73 , ARG A:102	BINDING SITE FOR RESIDUE SO4 A1209
4	AC4	SOFTWARE	HIS A:109 , PHE A:131 , ARG A:134 , GLN A:202 , GLN A:203 , HOH A:2048 , HOH A:2050 , HOH A:2072	BINDING SITE FOR RESIDUE SO4 A1210
5	AC5	SOFTWARE	GLN A:51 , ASN A:56 , GLU A:57	BINDING SITE FOR RESIDUE SO4 A1211
6	AC6	SOFTWARE	ASP B:115 , CYS B:147 , VAL B:148 , MET B:149 , GLY B:150 , ARG B:151 , SER B:152 , ARG B:153	BINDING SITE FOR RESIDUE SO4 B1202
7	AC7	SOFTWARE	VAL B:148 , ARG B:153	BINDING SITE FOR RESIDUE SO4 B1203

(no "SS Bond" information available for 2Y96)

Asymmetric Unit

No.	Residues
1	Ser A:49	-	Pro A:50
2	Ser B:49	-	Pro B:50

Asymmetric Unit (2, 4)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_051757	D	66	N	DUPD1_HUMAN	Polymorphism	11594934	A/B	D	66	N
2	UniProt	VAR_033376	S	137	R	DUPD1_HUMAN	Polymorphism	16931938	A/B	S	137	R

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

Biological Unit 1 (2, 8)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_051757	D	66	N	DUPD1_HUMAN	Polymorphism	11594934	A/B	D	66	N
2	UniProt	VAR_033376	S	137	R	DUPD1_HUMAN	Polymorphism	16931938	A/B	S	137	R

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

Asymmetric Unit (3, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TYR_PHOSPHATASE_DUAL	PS50054	Dual specificity protein phosphatase family profile.	DUPD1_HUMAN	54-201	2	A:54-201 B:54-201
2	TYR_PHOSPHATASE_2	PS50056	Tyrosine specific protein phosphatases family profile.	DUPD1_HUMAN	129-181	2	A:129-181 B:129-181
3	TYR_PHOSPHATASE_1	PS00383	Tyrosine specific protein phosphatases active site.	DUPD1_HUMAN	145-155	2	A:145-155 B:145-155

Biological Unit 1 (3, 12)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TYR_PHOSPHATASE_DUAL	PS50054	Dual specificity protein phosphatase family profile.	DUPD1_HUMAN	54-201	4	A:54-201 B:54-201
2	TYR_PHOSPHATASE_2	PS50056	Tyrosine specific protein phosphatases family profile.	DUPD1_HUMAN	129-181	4	A:129-181 B:129-181
3	TYR_PHOSPHATASE_1	PS00383	Tyrosine specific protein phosphatases active site.	DUPD1_HUMAN	145-155	4	A:145-155 B:145-155

(no "Exon" information available for 2Y96)

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:175
 aligned with DUPD1_HUMAN | Q68J44 from UniProtKB/Swiss-Prot  Length:220

    Alignment length:175
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201     
          DUPD1_HUMAN    32 DYCTPGAFELERLFWKGSPQYTHVNEVWPKLYIGDEATALDRYRLQKAGFTHVLNAAHGRWNVDTGPDYYRDMDIQYHGVEADDLPTFDLSVFFYPAAAFIDRALSDDHSKILVHCVMGRSRSATLVLAYLMIHKDMTLVDAIQQVAKNRCVLPNRGFLKQLRELDKQLVQQRRR 206
               SCOP domains d2y96a_ A: automated matches                                                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhh......eeeee..eeeehhhhhhhhhhhhhh...eeee.........hhhhhh.....eeee.........hhhhhhhhhhhhhhhhhh.....eeee.....hhhhhhhhhhhhhhh..hhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------N----------------------------------------------------------------------R--------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------TYR_PHOSPHATASE_DUAL  PDB: A:54-201 UniProt: 54-201                                                                                                 ----- PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------------TYR_PHOSPHATASE_2  PDB: A:129-181 UniProt: 129-181   ------------------------- PROSITE (2)
                PROSITE (3) -----------------------------------------------------------------------------------------------------------------TYR_PHOSPHA--------------------------------------------------- PROSITE (3)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2y96 A  32 DYCTPGAFELERLFWKGSPQYTHVNEVWPKLYIGDEATALDRYRLQKAGFTHVLNAAHGRWNVDTGPDYYRDMDIQYHGVEADDLPTFDLSVFFYPAAAFIDRALSDDHSKILVHCVMGRSRSATLVLAYLMIHKDMTLVDAIQQVAKNRCVLPNRGFLKQLRELDKQLVQQRRR 206
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201

Chain B from PDB  Type:PROTEIN  Length:165
 aligned with DUPD1_HUMAN | Q68J44 from UniProtKB/Swiss-Prot  Length:220

    Alignment length:170
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201
          DUPD1_HUMAN    32 DYCTPGAFELERLFWKGSPQYTHVNEVWPKLYIGDEATALDRYRLQKAGFTHVLNAAHGRWNVDTGPDYYRDMDIQYHGVEADDLPTFDLSVFFYPAAAFIDRALSDDHSKILVHCVMGRSRSATLVLAYLMIHKDMTLVDAIQQVAKNRCVLPNRGFLKQLRELDKQLV 201
               SCOP domains d2y96b_ B: automated matches                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ------------------------------DSPc-2y96B01 B:62-199                                                                                                                     -- Pfam domains (1)
           Pfam domains (2) ------------------------------DSPc-2y96B02 B:62-199                                                                                                                     -- Pfam domains (2)
         Sec.struct. author .....hhhhhhhhhhhh......eeeee..eeeehhhhhhhhhhhhhh...eeee...-----..hhhhhhh...eeee.........hhhhhhhhhhhhhhhhhhh....eeee.....hhhhhhhhhhhhhhh..hhhhhhhhhhh......hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------N----------------------------------------------------------------------R---------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------TYR_PHOSPHATASE_DUAL  PDB: B:54-201 UniProt: 54-201                                                                                                  PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------------TYR_PHOSPHATASE_2  PDB: B:129-181 UniProt: 129-181   -------------------- PROSITE (2)
                PROSITE (3) -----------------------------------------------------------------------------------------------------------------TYR_PHOSPHA---------------------------------------------- PROSITE (3)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2y96 B  32 DYCTPGAFELERLFWKGSPQYTHVNEVWPKLYIGDEATALDRYRLQKAGFTHVLNAAH-----DTGPDYYRDMDIQYHGVEADDLPTFDLSVFFYPAAAFIDRALSDDHSKILVHCVMGRSRSATLVLAYLMIHKDMTLVDAIQQVAKNRCVLPNRGFLKQLRELDKQLV 201
                                    41        51        61        71        81       | -   |   101       111       121       131       141       151       161       171       181       191       201
                                                                                    89    95

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: (Phosphotyrosine protein) phosphatases II (296)

Superfamily: (Phosphotyrosine protein) phosphatases II (296)

Family: automated matches (83)

Protein domain: automated matches (83)

Human (Homo sapiens) [TaxId: 9606] (76)

1a	d2y96a_	A:
1b	d2y96b_	B:

(no "CATH Domain" information available for 2Y96)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Phosphatase (121)

Family: DSPc (22)

Homo sapiens (Human) (13)

1a	DSPc-2y96B01	B:62-199
1b	DSPc-2y96B02	B:62-199

Asymmetric Unit(hide GO term definitions)

Chain A,B (DUPD1_HUMAN | Q68J44)

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: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.

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	Cis Peptide Bonds
		Ser A:49 - Pro A:50	[ RasMol ]
		Ser B:49 - Pro B:50	[ RasMol ]

Biological Unit
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	2y96
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(no "Entries Sharing at Least One Protein Chain" available for 2Y96)

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 7)

Sites (7, 7)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (2, 4)

PROSITE Motifs (3, 6)

Exons (0, 0)

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SCOP Domains (1, 2)

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Gene Ontology (9, 9)

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