2HC2 - JenaLib

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Title :   ENGINEERED PROTEIN TYROSINE PHOSPHATASE BETA CATALYTIC DOMAIN

Authors :   A. G. Evdokimov, M. Pokross, R. Walter, M. Mekel

Date :   15 Jun 06 (Deposition) - 27 Jun 06 (Release) - 09 Jun 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.40

Chains :   Asym./Biol. Unit : A

Keywords :   Protein Tyrosine Phosphatase, Wpd-Loop, Sulfamic Acid, Phosphatase, Inhibitor, Drug Design, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. G. Evdokimov, M. Pokross, R. Walter, M. Mekel, B. Cox, C. Li, R. Bechard, F. Genbauffe, R. Andrews, C. Diven, B. Howard, V. Rastogi, J. Gray, M. Maier, K. G. Peters
Engineering The Catalytic Domain Of Human Protein Tyrosine Phosphatase Beta For Structure-Based Drug Discovery.
Acta Crystallogr. , Sect. D V. 62 1435 2006
PubMed-ID: 17139078 | Reference-DOI: 10.1107/S0907444906037784
(for further references see the PDB file header)

Molecule 1 - RECEPTOR-TYPE TYROSINE-PROTEIN PHOSPHATASE BETA
	Chains	:	A
	EC Number	:	3.1.3.48
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PHISMBP-DEST
	Expression System Strain	:	TOP10
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	CATALYTIC DOMAIN
	Gene	:	PTPRB
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	PROTEIN-TYROSINE PHOSPHATASE BETA, R-PTP-BETA

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 3)

No.	Name	Count	Type	Full Name
1	MG	1	Ligand/Ion	MAGNESIUM ION
2	NA	2	Ligand/Ion	SODIUM ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HOH A:1 , HOH A:2 , HOH A:3 , HOH A:4 , HOH A:5 , HOH A:6	BINDING SITE FOR RESIDUE MG A 401
2	AC2	SOFTWARE	HOH A:366 , GLY A:1872 , THR A:1949	BINDING SITE FOR RESIDUE NA A 402
3	AC3	SOFTWARE	LEU A:1823 , TYR A:1824	BINDING SITE FOR RESIDUE NA A 403

(no "SS Bond" information available for 2HC2)

(no "Cis Peptide Bond" information available for 2HC2)

Asymmetric/Biological Unit (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_057139	G	1934	A	PTPRB_HUMAN	Polymorphism	17226367	A	G	1934	A

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

Asymmetric/Biological Unit (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TYR_PHOSPHATASE_PTP	PS50055	PTP type protein phosphatase family profile.	PTPRB_HUMAN	1703-1963	1	A:1703-1963
2	TYR_PHOSPHATASE_2	PS50056	Tyrosine specific protein phosphatases family profile.	PTPRB_HUMAN	1878-1954	1	A:1878-1954
3	TYR_PHOSPHATASE_1	PS00383	Tyrosine specific protein phosphatases active site.	PTPRB_HUMAN	1902-1912	1	A:1902-1912

Asymmetric/Biological Unit (9, 9)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.4a	ENST00000261266	4a	ENSE00000871974	chr12:71003624-71003541	84	PTPRB_HUMAN	1-18	18	0	-	-
1.5	ENST00000261266	5	ENSE00000871972	chr12:71003119-71002849	271	PTPRB_HUMAN	19-109	91	0	-	-
1.6	ENST00000261266	6	ENSE00001176717	chr12:70990107-70989829	279	PTPRB_HUMAN	109-202	94	0	-	-
1.7	ENST00000261266	7	ENSE00001176709	chr12:70988504-70988247	258	PTPRB_HUMAN	202-288	87	0	-	-
1.8	ENST00000261266	8	ENSE00001176702	chr12:70986325-70986062	264	PTPRB_HUMAN	288-376	89	0	-	-
1.9	ENST00000261266	9	ENSE00001176692	chr12:70984013-70983744	270	PTPRB_HUMAN	376-466	91	0	-	-
1.10	ENST00000261266	10	ENSE00001176680	chr12:70981047-70980787	261	PTPRB_HUMAN	466-553	88	0	-	-
1.11	ENST00000261266	11	ENSE00001176673	chr12:70975082-70974816	267	PTPRB_HUMAN	553-642	90	0	-	-
1.12	ENST00000261266	12	ENSE00001176665	chr12:70970425-70970162	264	PTPRB_HUMAN	642-730	89	0	-	-
1.13	ENST00000261266	13	ENSE00001176657	chr12:70965867-70965604	264	PTPRB_HUMAN	730-818	89	0	-	-
1.14	ENST00000261266	14	ENSE00001176650	chr12:70965069-70964806	264	PTPRB_HUMAN	818-906	89	0	-	-
1.15	ENST00000261266	15	ENSE00001176641	chr12:70963718-70963455	264	PTPRB_HUMAN	906-994	89	0	-	-
1.16	ENST00000261266	16	ENSE00001176634	chr12:70960484-70960215	270	PTPRB_HUMAN	994-1084	91	0	-	-
1.17	ENST00000261266	17	ENSE00001176624	chr12:70956887-70956624	264	PTPRB_HUMAN	1084-1172	89	0	-	-
1.18	ENST00000261266	18	ENSE00001176613	chr12:70954714-70954451	264	PTPRB_HUMAN	1172-1260	89	0	-	-
1.19	ENST00000261266	19	ENSE00001601030	chr12:70953404-70953123	282	PTPRB_HUMAN	1260-1354	95	0	-	-
1.20	ENST00000261266	20	ENSE00001754193	chr12:70949928-70949650	279	PTPRB_HUMAN	1354-1447	94	0	-	-
1.21a	ENST00000261266	21a	ENSE00001778550	chr12:70949089-70948940	150	PTPRB_HUMAN	1447-1497	51	0	-	-
1.22a	ENST00000261266	22a	ENSE00001618774	chr12:70946800-70946557	244	PTPRB_HUMAN	1497-1578	82	0	-	-
1.23	ENST00000261266	23	ENSE00001708455	chr12:70938443-70938337	107	PTPRB_HUMAN	1578-1614	37	0	-	-
1.24	ENST00000261266	24	ENSE00001782264	chr12:70934737-70934638	100	PTPRB_HUMAN	1614-1647	34	0	-	-
1.25	ENST00000261266	25	ENSE00001629388	chr12:70933802-70933719	84	PTPRB_HUMAN	1647-1675	29	0	-	-
1.26	ENST00000261266	26	ENSE00001617922	chr12:70933624-70933607	18	PTPRB_HUMAN	1675-1681	7	1	A:1676-1681	6
1.27	ENST00000261266	27	ENSE00001593093	chr12:70933486-70933405	82	PTPRB_HUMAN	1681-1708	28	1	A:1681-1708	28
1.28	ENST00000261266	28	ENSE00001711408	chr12:70932794-70932704	91	PTPRB_HUMAN	1709-1739	31	1	A:1709-1739	31
1.29	ENST00000261266	29	ENSE00001747568	chr12:70932011-70931935	77	PTPRB_HUMAN	1739-1764	26	1	A:1739-1764 (gaps)	26
1.30	ENST00000261266	30	ENSE00001708497	chr12:70929939-70929805	135	PTPRB_HUMAN	1765-1809	45	1	A:1765-1809	45
1.31	ENST00000261266	31	ENSE00001790021	chr12:70928735-70928613	123	PTPRB_HUMAN	1810-1850	41	1	A:1810-1850	41
1.32	ENST00000261266	32	ENSE00001778655	chr12:70928431-70928268	164	PTPRB_HUMAN	1851-1905	55	1	A:1851-1905 (gaps)	55
1.33	ENST00000261266	33	ENSE00001680441	chr12:70925950-70925815	136	PTPRB_HUMAN	1905-1950	46	1	A:1905-1950	46
1.34	ENST00000261266	34	ENSE00001754760	chr12:70918371-70918251	121	PTPRB_HUMAN	1951-1991	41	1	A:1951-1969	19
1.35	ENST00000261266	35	ENSE00001244013	chr12:70915291-70910630	4662	PTPRB_HUMAN	1991-1997	7	0	-	-

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:284
 aligned with PTPRB_HUMAN | P23467 from UniProtKB/Swiss-Prot  Length:1997

    Alignment length:294
                                  1685      1695      1705      1715      1725      1735      1745      1755      1765      1775      1785      1795      1805      1815      1825      1835      1845      1855      1865      1875      1885      1895      1905      1915      1925      1935      1945      1955      1965    
         PTPRB_HUMAN   1676 NRKTSCPIKINQFEGHFMKLQADSNYLLSKEYEELKDVGRNQSCDIALLPENRGKNRYNNILPYDATRVKLSNVDDDPCSDYINASYIPGNNFRREYIVTQGPLPGTKDDFWKMVWEQNVHNIVMVTQCVEKGRVKCDHYWPADQDSLYYGDLILQMLSESVLPEWTIREFKICGEEQLDAHRLIRHFHYTVWPDHGVPETTQSLIQFVRTVRDYINRSPGAGPTVVHCSAGVGRTGTFIALDRILQQLDSKDSVDIYGAVHDLRLHRVHMVQTECQYVYLHQCVRDVLRARKL 1969
               SCOP domains d2hc2a_ A: automated matches                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains 2hc2A00 A:1676-1969 Protein tyrosine phosphatase superfamily                                                                                                                                                                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......ee..hhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhh.......hhh.eee....-----..eeeeeee........eeee......hhhhhhhhhhhh...eeee....ee..ee............eee..eeeeeeeeee...eeeeeeeee..-----.eeeeeeee..........hhhhhhhhhhhhhhhhhh......eeee....hhhhhhhhhhhhhhhhhhhh.eehhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A----------------------------------- SAPs(SNPs)
                PROSITE (1) ---------------------------TYR_PHOSPHATASE_PTP  PDB: A:1703-1963 UniProt: 1703-1963                                                                                                                                                                                                             ------ PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TYR_PHOSPHATASE_2  PDB: A:1878-1954 UniProt: 1878-1954                       --------------- PROSITE (2)
                PROSITE (3) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TYR_PHOSPHA--------------------------------------------------------- PROSITE (3)
           Transcript 1 (1) 1.26  ---------------------------Exon 1.28  PDB: A:1709-1739    -------------------------Exon 1.30  PDB: A:1765-1809                  Exon 1.31  PDB: A:1810-1850              Exon 1.32  PDB: A:1851-1905 (gaps) UniProt: 1851-1905  ---------------------------------------------Exon 1.34           Transcript 1 (1)
           Transcript 1 (2) -----Exon 1.27  PDB: A:1681-1708 ------------------------------Exon 1.29                 --------------------------------------------------------------------------------------------------------------------------------------------Exon 1.33  PDB: A:1905-1950 UniProt: 1905-1950------------------- Transcript 1 (2)
                2hc2 A 1676 NRKTSCPIKINQFEGHFMKLQADSNYLLSKEYEELKDVGRNQSCDIALLPENRGKNRYNNILPYDATRVKLSGG-----SDYINASYIPGNNFRREYIVTQGPLPGTKDDFWKMVWEQNVHNIVMVTQCVEKGRVKCDHYWPADQDSLYYGDLILQMLSESVLPEWTIREFKICGE-----HRLIRHFHYTVWPDHGVPETTQSLIQFVRTVRDYINRSPGAGPTVVHCSAGVGRTGTFIALDRILQQLDSKDSVDIYGAVHDLRLHRVHMVQTECQYVYLHQCVRDVLRARKL 1969
                                  1685      1695      1705      1715      1725      1735      1745   |  1755      1765      1775      1785      1795      1805      1815      1825      1835      1845     |   - |    1865      1875      1885      1895      1905      1915      1925      1935      1945      1955      1965    
                                                                                                  1749  1755                                                                                            1851  1857

Legend:		→ Mismatch	(orange background)
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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/Biological Unit

Classes(

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Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

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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)

d2hc2a_

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

)

Organisms( (-)

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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)

2hc2A00

A:1676-1969

(no "Pfam Domain" information available for 2HC2)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (PTPRB_HUMAN | P23467)

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:0004725	protein tyrosine phosphatase activity	Catalysis of the reaction: protein tyrosine phosphate + H2O = protein tyrosine + phosphate.
	GO:0005001	transmembrane receptor protein tyrosine phosphatase activity	Combining with a signal and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity by catalysis of the reaction: protein tyrosine phosphate + H2O = protein tyrosine + phosphate.
biological process
	GO:0001525	angiogenesis	Blood vessel formation when new vessels emerge from the proliferation of pre-existing blood vessels.
	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:0006796	phosphate-containing compound metabolic process	The chemical reactions and pathways involving the phosphate group, the anion or salt of any phosphoric acid.
	GO:0006470	protein dephosphorylation	The process of removing one or more phosphoric residues from a protein.
cellular component
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0005887	integral component of plasma membrane	The component of the plasma membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0043235	receptor complex	Any protein complex that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.

Asymmetric/Biological Unit
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