1D1P - JenaLib

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Title :   CRYSTAL STRUCTURE OF A YEAST LOW MOLECULAR WEIGHT PROTEIN TYROSINE PHOSPHATASE (LTP1)

Authors :   S. Wang, L. Tabernero, M. Zhang, E. Harms, R. L. Van Etten, C. V. Stauffacher

Date :   20 Sep 99 (Deposition) - 08 Mar 00 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Beta-Alpha-Beta, Tyrosine Phosphatase, Ltp1, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. Wang, L. Tabernero, M. Zhang, E. Harms, R. L. Van Etten, C. V. Stauffacher
Crystal Structures Of A Low-Molecular Weight Protein Tyrosine Phosphatase From Saccharomyces Cerevisiae And Its Complex With The Substrate P-Nitrophenyl Phosphate.
Biochemistry V. 39 1903 2000
PubMed-ID: 10684639 | Reference-DOI: 10.1021/BI991348D
(for further references see the PDB file header)

Molecule 1 - TYROSINE PHOSPHATASE
	Chains	:	A, B
	EC Number	:	3.1.3.48
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PT7-7
	Expression System Taxid	:	562
	Organism Common	:	BAKER'S YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	4932

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	EPE	2	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	EPE	1	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	EPE	1	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:13 , LEU A:14 , GLY A:15 , ASN A:16 , PHE A:17 , CYS A:18 , ARG A:19 , HIS A:52 , ASP A:132 , TRP A:134 , HOH A:227 , TYR B:51	BINDING SITE FOR RESIDUE EPE A 201
2	AC2	SOFTWARE	HOH A:218 , CYS B:13 , LEU B:14 , GLY B:15 , ASN B:16 , PHE B:17 , CYS B:18 , ARG B:19 , HIS B:52 , ASP B:132 , TRP B:134 , HOH B:210	BINDING SITE FOR RESIDUE EPE B 202

(no "SS Bond" information available for 1D1P)

(no "Cis Peptide Bond" information available for 1D1P)

(no "SAP(SNP)/Variant" information available for 1D1P)

(no "PROSITE Motif" information available for 1D1P)

Asymmetric Unit (1, 2)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	YPR073C	1	YPR073C.1	XVI:692415-691930	486	PPAL_YEAST	1-161	161	2	A:5-160 B:4-160	156 157

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:156
 aligned with PPAL_YEAST | P40347 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:156
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155      
           PPAL_YEAST     6 PKISVAFICLGNFCRSPMAEAIFKHEVEKANLENRFNKIDSFGTSNYHVGESPDHRTVSICKQHGVKINHKGKQIKTKHFDEYDYIIGMDESNINNLKKIQPEGSKAKVCLFGDWNTNDGTVQTIIEDPWYGDIQDFEYNFKQITYFSKQFLKKEL 161
               SCOP domains d1d1pa_ A: Tyrosine phosphatase                                                                                                                              SCOP domains
               CATH domains 1d1pA00 A:5-160  [code=3.40.50.270, no name defined]                                                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeeee.....hhhhhhhhhhhhhhhhh....eeeeeeee..........hhhhhhhhhhh.............hhhhhh.eeee.hhhhhhhhhhhh......eeee.....................hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
               Transcript 1 Exon 1.1  PDB: A:5-160 UniProt: 1-161 [INCOMPLETE]                                                                                                           Transcript 1
                 1d1p A   5 PKISVAFICLGNFCRSPMAEAIFKHEVEKANLENRFNKIDSFGTSNYHVGESPDHRTVSICKQHGVKINHKGKQIKTKHFDEYDYIIGMDESNINNLKKIQPEGSKAKVCLFGDWNTNDGTVQTIIEDPWYGDIQDFEYNFKQITYFSKQFLKKEL 160
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154

Chain B from PDB  Type:PROTEIN  Length:157
 aligned with PPAL_YEAST | P40347 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:157
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       
           PPAL_YEAST     5 KPKISVAFICLGNFCRSPMAEAIFKHEVEKANLENRFNKIDSFGTSNYHVGESPDHRTVSICKQHGVKINHKGKQIKTKHFDEYDYIIGMDESNINNLKKIQPEGSKAKVCLFGDWNTNDGTVQTIIEDPWYGDIQDFEYNFKQITYFSKQFLKKEL 161
               SCOP domains d1d1pb_ B: Tyrosine phosphatase                                                                                                                               SCOP domains
               CATH domains 1d1pB00 B:4-160  [code=3.40.50.270, no name defined]                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee....hhhhhhhhhhhhhhhhhhhhh.eeeeeeee..........hhhhhhhhhhh....................eeee.hhhhhhhhhhhh......eeee.....................hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: B:4-160 UniProt: 1-161 [INCOMPLETE]                                                                                                            Transcript 1
                 1d1p B   4 KPKISVAFICLGNFCRSPMAEAIFKHEVEKANLENRFNKIDSFGTSNYHVGESPDHRTVSICKQHGVKINHKGKQIKTKHFDEYDYIIGMDESNINNLKKIQPEGSKAKVCLFGDWNTNDGTVQTIIEDPWYGDIQDFEYNFKQITYFSKQFLKKEL 160
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153

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 '\|'

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: [code=3.40.50.270, no name defined] (36)

Baker's yeast (Saccharomyces cerevisiae) (3)

1a	1d1pA00	A:5-160
1b	1d1pB00	B:4-160

(no "Pfam Domain" information available for 1D1P)

Asymmetric Unit(hide GO term definitions)

Chain A,B (PPAL_YEAST | P40347)

molecular function
	GO:0003993	acid phosphatase activity	Catalysis of the reaction: an orthophosphoric monoester + H2O = an alcohol + phosphate, with an acid pH optimum.
	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: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.
biological process
	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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Biological Units
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	1d1p
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	PPAL_YEAST \| P40347	:	1d1q 1d2a

1d1q	STRUCTURE OF C13A MUTANT LTP1 COMPLEXED WITH 4-NITROPHENYL PHOSPHATE
1d2a	STRUCTURE OF THE C13A MUTANT LTP1 COMPLEXED WITH THE ACTIVATOR ADENINE

Description

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Ligands, Modified Residues, Ions (1, 2)

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