1TE2 - JenaLib

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Title :   PUTATIVE PHOSPHATASE YNIC FROM ESCHERICHIA COLI K12

Authors :   Y. Kim, A. Joachimiak, E. Evdokimova, A. Savchenko, A. Edwards, Midwes For Structural Genomics (Mcsg)

Date :   24 May 04 (Deposition) - 03 Aug 04 (Release) - 24 Jun 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.76

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

Keywords :   Structural Genomics, Phosphatase, Phosphates, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Kim, A. Joachimiak, E. Evdokimova, A. Savchenko, A. Edwards
Crystal Structure Of Putative Phosphatase Ynic From Escherichia Coli K12
To Be Published
PubMed: search

Molecule 1 - 2-DEOXYGLUCOSE-6-P PHOSPHATASE
	Chains	:	A, B
	EC Number	:	3.1.3.18
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	83333
	Strain	:	K12

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 20)

No.	Name	Count	Type	Full Name
1	CA	4	Ligand/Ion	CALCIUM ION
2	MSE	14	Mod. Amino Acid	SELENOMETHIONINE
3	PGA	2	Ligand/Ion	2-PHOSPHOGLYCOLIC ACID

Biological Unit 1 (2, 16)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	MSE	14	Mod. Amino Acid	SELENOMETHIONINE
3	PGA	2	Ligand/Ion	2-PHOSPHOGLYCOLIC ACID

Biological Unit 2 (2, 8)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	MSE	7	Mod. Amino Acid	SELENOMETHIONINE
3	PGA	1	Ligand/Ion	2-PHOSPHOGLYCOLIC ACID

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:13 , MSE A:14 , ASP A:15 , GLY A:51 , SER A:115 , ALA A:116 , LYS A:148 , CA A:702 , HOH A:713 , HOH A:720	BINDING SITE FOR RESIDUE PGA A 711
2	AC2	SOFTWARE	ASP B:13 , MSE B:14 , ASP B:15 , GLY B:51 , SER B:115 , ALA B:116 , LYS B:148 , CA B:704 , HOH B:716 , HOH B:860 , HOH B:924	BINDING SITE FOR RESIDUE PGA B 712
3	AC3	SOFTWARE	ASP A:130 , ASP A:133 , HOH A:738 , ASP B:130 , ASP B:133 , HOH B:743	BINDING SITE FOR RESIDUE CA B 701
4	AC4	SOFTWARE	ASP A:13 , ASP A:15 , ASP A:173 , PGA A:711 , HOH A:713 , HOH A:720 , HOH A:725	BINDING SITE FOR RESIDUE CA A 702
5	AC5	SOFTWARE	GLU B:106 , HOH B:829 , HOH B:927	BINDING SITE FOR RESIDUE CA B 703
6	AC6	SOFTWARE	ASP B:13 , ASP B:15 , ASP B:173 , PGA B:712 , HOH B:716 , HOH B:740 , HOH B:924	BINDING SITE FOR RESIDUE CA B 704

(no "SS Bond" information available for 1TE2)

Asymmetric Unit

No.	Residues
1	Lys A:148	-	Pro A:149
2	Lys B:148	-	Pro B:149

(no "SAP(SNP)/Variant" information available for 1TE2)

(no "PROSITE Motif" information available for 1TE2)

(no "Exon" information available for 1TE2)

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:218
 aligned with C3T7L2_ECOLX | C3T7L2 from UniProtKB/TrEMBL  Length:222

    Alignment length:218
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214        
         C3T7L2_ECOLX     5 RQILAAIFDMDGLLIDSEPLWDRAELDVMASLGVDISRRNELPDTLGLRIDMVVDLWYARQPWNGPSRQEVVERVIARAISLVEETRPLLPGVREAVALCKEQGLLVGLASASPLHMLEKVLTMFDLRDSFDALASAEKLPYSKPHPQVYLDCAAKLGVDPLTCVALEDSVNGMIASKAARMRSIVVPAPEAQNDPRFVLANVKLSSLTELTAKDLLG 222
               SCOP domains d1te2a_ A: Phosphatase YniC                                                                                                                                                                                                SCOP domains
               CATH domains 1te2A01        1te2A02 A:20-91 Putative phosphatase; domain 2                          1te2A01 A:5-19,A:92-222  [code=3.40.50.1000, no name defined]                                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee........hhhhhhhhhhhhhhhh..hhhhhhhh......hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhhh.eeee..........hhhhhhhhhhhh.hhh.eeeee.hhhhhhhhhhh..eeee........hhhhhhh.ee..hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1te2 A   5 RQILAAIFDmDGLLIDSEPLWDRAELDVmASLGVDISRRNELPDTLGLRIDmVVDLWYARQPWNGPSRQEVVERVIARAISLVEETRPLLPGVREAVALCKEQGLLVGLASASPLHmLEKVLTmFDLRDSFDALASAEKLPYSKPHPQVYLDCAAKLGVDPLTCVALEDSVNGmIASKAARmRSIVVPAPEAQNDPRFVLANVKLSSLTELTAKDLLG 222
                                    14        24        34        44        54 |      64        74        84        94       104       114      |124   |   134       144       154       164       174   |   184 |     194       204       214        
                                    14-MSE             33-MSE                 56-MSE                                                          121-MSE  |                                               178-MSE 186-MSE                                
                                                                                                                                                     128-MSE

Chain A from PDB  Type:PROTEIN  Length:218
 aligned with HXPB_ECOLI | P77247 from UniProtKB/Swiss-Prot  Length:222

    Alignment length:218
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214        
           HXPB_ECOLI     5 RQILAAIFDMDGLLIDSEPLWDRAELDVMASLGVDISRRNELPDTLGLRIDMVVDLWYARQPWNGPSRQEVVERVIARAISLVEETRPLLPGVREAVALCKEQGLLVGLASASPLHMLEKVLTMFDLRDSFDALASAEKLPYSKPHPQVYLDCAAKLGVDPLTCVALEDSVNGMIASKAARMRSIVVPAPEAQNDPRFVLADVKLSSLTELTAKDLLG 222
               SCOP domains d1te2a_ A: Phosphatase YniC                                                                                                                                                                                                SCOP domains
               CATH domains 1te2A01        1te2A02 A:20-91 Putative phosphatase; domain 2                          1te2A01 A:5-19,A:92-222  [code=3.40.50.1000, no name defined]                                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee........hhhhhhhhhhhhhhhh..hhhhhhhh......hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhhh.eeee..........hhhhhhhhhhhh.hhh.eeeee.hhhhhhhhhhh..eeee........hhhhhhh.ee..hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1te2 A   5 RQILAAIFDmDGLLIDSEPLWDRAELDVmASLGVDISRRNELPDTLGLRIDmVVDLWYARQPWNGPSRQEVVERVIARAISLVEETRPLLPGVREAVALCKEQGLLVGLASASPLHmLEKVLTmFDLRDSFDALASAEKLPYSKPHPQVYLDCAAKLGVDPLTCVALEDSVNGmIASKAARmRSIVVPAPEAQNDPRFVLANVKLSSLTELTAKDLLG 222
                                    14        24        34        44        54 |      64        74        84        94       104       114      |124   |   134       144       154       164       174   |   184 |     194       204       214        
                                    14-MSE             33-MSE                 56-MSE                                                          121-MSE  |                                               178-MSE 186-MSE                                
                                                                                                                                                     128-MSE

Chain B from PDB  Type:PROTEIN  Length:218
 aligned with C3T7L2_ECOLX | C3T7L2 from UniProtKB/TrEMBL  Length:222

    Alignment length:218
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214        
         C3T7L2_ECOLX     5 RQILAAIFDMDGLLIDSEPLWDRAELDVMASLGVDISRRNELPDTLGLRIDMVVDLWYARQPWNGPSRQEVVERVIARAISLVEETRPLLPGVREAVALCKEQGLLVGLASASPLHMLEKVLTMFDLRDSFDALASAEKLPYSKPHPQVYLDCAAKLGVDPLTCVALEDSVNGMIASKAARMRSIVVPAPEAQNDPRFVLANVKLSSLTELTAKDLLG 222
               SCOP domains d1te2b_ B: Phosphatase YniC                                                                                                                                                                                                SCOP domains
               CATH domains 1te2B01        1te2B02 B:20-91 Putative phosphatase; domain 2                          1te2B01 B:5-19,B:92-222  [code=3.40.50.1000, no name defined]                                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee........hhhhhhhhhhhhhhhh..hhhhhhhh......hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhhh.eeee..........hhhhhhhhhhhh.hhh.eeeee.hhhhhhhhhhh..eeee..hhhhh.hhhhhhh.ee..hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1te2 B   5 RQILAAIFDmDGLLIDSEPLWDRAELDVmASLGVDISRRNELPDTLGLRIDmVVDLWYARQPWNGPSRQEVVERVIARAISLVEETRPLLPGVREAVALCKEQGLLVGLASASPLHmLEKVLTmFDLRDSFDALASAEKLPYSKPHPQVYLDCAAKLGVDPLTCVALEDSVNGmIASKAARmRSIVVPAPEAQNDPRFVLANVKLSSLTELTAKDLLG 222
                                    14        24        34        44        54 |      64        74        84        94       104       114      |124   |   134       144       154       164       174   |   184 |     194       204       214        
                                    14-MSE             33-MSE                 56-MSE                                                          121-MSE  |                                               178-MSE 186-MSE                                
                                                                                                                                                     128-MSE

Chain B from PDB  Type:PROTEIN  Length:218
 aligned with HXPB_ECOLI | P77247 from UniProtKB/Swiss-Prot  Length:222

    Alignment length:218
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214        
           HXPB_ECOLI     5 RQILAAIFDMDGLLIDSEPLWDRAELDVMASLGVDISRRNELPDTLGLRIDMVVDLWYARQPWNGPSRQEVVERVIARAISLVEETRPLLPGVREAVALCKEQGLLVGLASASPLHMLEKVLTMFDLRDSFDALASAEKLPYSKPHPQVYLDCAAKLGVDPLTCVALEDSVNGMIASKAARMRSIVVPAPEAQNDPRFVLADVKLSSLTELTAKDLLG 222
               SCOP domains d1te2b_ B: Phosphatase YniC                                                                                                                                                                                                SCOP domains
               CATH domains 1te2B01        1te2B02 B:20-91 Putative phosphatase; domain 2                          1te2B01 B:5-19,B:92-222  [code=3.40.50.1000, no name defined]                                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee........hhhhhhhhhhhhhhhh..hhhhhhhh......hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhhh.eeee..........hhhhhhhhhhhh.hhh.eeeee.hhhhhhhhhhh..eeee..hhhhh.hhhhhhh.ee..hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1te2 B   5 RQILAAIFDmDGLLIDSEPLWDRAELDVmASLGVDISRRNELPDTLGLRIDmVVDLWYARQPWNGPSRQEVVERVIARAISLVEETRPLLPGVREAVALCKEQGLLVGLASASPLHmLEKVLTmFDLRDSFDALASAEKLPYSKPHPQVYLDCAAKLGVDPLTCVALEDSVNGmIASKAARmRSIVVPAPEAQNDPRFVLANVKLSSLTELTAKDLLG 222
                                    14        24        34        44        54 |      64        74        84        94       104       114      |124   |   134       144       154       164       174   |   184 |     194       204       214        
                                    14-MSE             33-MSE                 56-MSE                                                          121-MSE  |                                               178-MSE 186-MSE                                
                                                                                                                                                     128-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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: HAD-like (349)

Superfamily: HAD-like (349)

Family: beta-Phosphoglucomutase-like (27)

Protein domain: Phosphatase YniC (1)

Escherichia coli [TaxId: 562] (1)

1a	d1te2a_	A:
1b	d1te2b_	B:

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=3.40.50.1000, no name defined] (211)

Escherichia coli o157:h7. Organism_taxid: 83334. Strain: o157:h7. (1)

1a	1te2A01	A:5-19,A:92-222
1b	1te2B01	B:5-19,B:92-222

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: DNA polymerase; domain 1 (617)

Homologous Superfamily: Putative phosphatase; domain 2 (65)

Escherichia coli o157:h7. Organism_taxid: 83334. Strain: o157:h7. (1)

2a	1te2A02	A:20-91
2b	1te2B02	B:20-91

(no "Pfam Domain" information available for 1TE2)

Asymmetric Unit(hide GO term definitions)

Chain A,B (HXPB_ECOLI | P77247)

molecular function
	GO:0003850	2-deoxyglucose-6-phosphatase activity	Catalysis of the reaction: 2-deoxy-D-glucose-6-phosphate + H2O = 2-deoxy-D-glucose + phosphate.
	GO:0004346	glucose-6-phosphatase activity	Catalysis of the reaction: D-glucopyranose 6-phosphate + H2O = D-glucose + phosphate. D-glucopyranose is also known as D-glucose 6-phosphate.
	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:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0016791	phosphatase activity	Catalysis of the hydrolysis of phosphoric monoesters, releasing inorganic phosphate.
	GO:0050308	sugar-phosphatase activity	Catalysis of the reaction: sugar phosphate + H2O = sugar + phosphate.
biological process
	GO:0016311	dephosphorylation	The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
cellular component
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

Chain A,B (C3T7L2_ECOLX | C3T7L2)

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.
biological process
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

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		Lys A:148 - Pro A:149	[ RasMol ]
		Lys B:148 - Pro B:149	[ RasMol ]

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