3RF6 - JenaLib

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Title :   CRYSTAL STRUCTURE OF GLYCEROL-3 PHOSPHATE BOUND HAD-LIKE PHOSPHATASE FROM SACCHAROMYCES CEREVISIAE

Authors :   B. Nocek, K. Kuznetsova, E. Evdokimova, A. Savchenko, A. Iakunine, A. Joachimiak, Mcsg, Midwest Center For Structural Genomics (M

Date :   05 Apr 11 (Deposition) - 01 Jun 11 (Release) - 01 Jun 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

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

Keywords :   Psi-2, Mcsg, Structural Genomics, Midwest Center For Structural Genomics, Haloacid Dehalogenase-Like Hydrolase, Mitochondria, Phosphatase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. Nocek, K. Kuznetsova, E. Evdokimova, A. Savchenko, A. Iakunine, A. Joachimiak
Crystal Structure Of Glycerol-3 Phosphate Bound Had-Like Phosphatase From Saccharomyces Cerevisiae
To Be Published
PubMed: search

Molecule 1 - UNCHARACTERIZED PROTEIN YKR070W
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21DE3
	Expression System Taxid	:	469008
	Gene	:	YKR070W
	Organism Common	:	YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	4932

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 7)

No.	Name	Count	Type	Full Name
1	FLC	2	Ligand/Ion	CITRATE ANION
2	G3P	2	Ligand/Ion	SN-GLYCEROL-3-PHOSPHATE
3	MG	3	Ligand/Ion	MAGNESIUM ION

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	FLC	2	Ligand/Ion	CITRATE ANION
2	G3P	2	Ligand/Ion	SN-GLYCEROL-3-PHOSPHATE
3	MG	-1	Ligand/Ion	MAGNESIUM ION

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	FLC	2	Ligand/Ion	CITRATE ANION
2	G3P	2	Ligand/Ion	SN-GLYCEROL-3-PHOSPHATE
3	MG	-1	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:224 , LEU A:225 , ARG A:228 , HOH A:364 , HOH A:480 , HOH A:593 , HOH A:595 , ARG B:229 , GLY B:282 , THR B:283 , LYS B:284	BINDING SITE FOR RESIDUE FLC A 401
2	AC2	SOFTWARE	ALA A:19 , ILE A:20 , ASP A:21 , THR A:52 , ASN A:53 , GLY A:54 , ASN A:204 , ASP A:206 , LYS A:246 , HOH A:404 , HOH A:537 , MG A:701	BINDING SITE FOR RESIDUE G3P A 501
3	AC3	SOFTWARE	ASP A:21 , ASP A:298 , HOH A:404 , G3P A:501 , HOH A:548	BINDING SITE FOR RESIDUE MG A 701
4	AC4	SOFTWARE	GLY A:134 , GLN A:139 , HOH A:385 , HOH A:405 , GLY B:134 , GLN B:139	BINDING SITE FOR RESIDUE MG A 353
5	AC5	SOFTWARE	ARG A:229 , ARG B:224 , LEU B:225 , ARG B:228 , HOH B:370 , HOH B:586	BINDING SITE FOR RESIDUE FLC B 402
6	AC6	SOFTWARE	ALA B:19 , ILE B:20 , ASP B:21 , THR B:52 , ASN B:53 , GLY B:54 , ASN B:204 , ASP B:206 , LYS B:246 , HOH B:421 , HOH B:520 , HOH B:587 , MG B:701	BINDING SITE FOR RESIDUE G3P B 501
7	AC7	SOFTWARE	ASP B:21 , ASP B:298 , HOH B:380 , G3P B:501 , HOH B:587	BINDING SITE FOR RESIDUE MG B 701

(no "SS Bond" information available for 3RF6)

Asymmetric Unit

No.	Residues
1	Lys A:246	-	Pro A:247
2	Lys B:246	-	Pro B:247

(no "SAP(SNP)/Variant" information available for 3RF6)

(no "PROSITE Motif" information available for 3RF6)

(no "Exon" information available for 3RF6)

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:340
 aligned with YK50_YEAST | P36151 from UniProtKB/Swiss-Prot  Length:352

    Alignment length:340
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352
           YK50_YEAST    13 KIAFAFDIDGVLFRGKKPIAGASDALKLLNRNKIPYILLTNGGGFSERARTEFISSKLDVDVSPLQIIQSHTPYKSLVNKYSRILAVGTPSVRGVAEGYGFQDVVHQTDIVRYNRDIAPFSGLSDEQVMEYSRDIPDLTTKKFDAVLVFNDPHDWAADIQIISDAINSENGMLNTLRNEKSGKPSIPIYFSNQDLLWANPYKLNRFGQGAFRLLVRRLYLELNGEPLQDYTLGKPTKLTYDFAHHVLIDWEKRLSGKIGQSVKQKLPLLGTKPSTSPFHAVFMVGDNPASDIIGAQNYGWNSCLVKTGVYNEGDDLKECKPTLIVNDVFDAVTKTLEKYA 352
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee......ee..ee..hhhhhhhhhhhh...eeee......hhhhhhhhhhhhh....hhh.ee..hhhhhhhh....eeeee...hhhhhhhhhh..eeeehhhhhhhhhhhh.....hhhhhhhhh............eeee.....hhhhhhhhhhhhhh....................eee.....ee.......eehhhhhhhhhhhhhhhhhh.....ee....hhhhhhhhhhhhhhhhhhhhh.......................eeeeee....hhhhhhhhhh.eeeee.................eee.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rf6 A  13 KIAFAFAIDGVLFRGKKPIAGASDALKLLNRNKIPYILLTNGGGFSERARTEFISSKLDVDVSPLQIIQSHTPYKSLVNKYSRILAVGTPSVRGVAEGYGFQDVVHQTDIVRYNRDIAPFSGLSDEQVMEYSRDIPDLTTKKFDAVLVFNDPHDWAADIQIISDAINSENGMLNTLRNEKSGKPSIPIYFSNQDLLWANPYKLNRFGQGAFRLLVRRLYLELNGEPLQDYTLGKPTKLTYDFAHHVLIDWEKRLSGKIGQSVKQKLPLLGTKPSTSPFHAVFMVGDNPASDIIGAQNYGWNSCLVKTGVYNEGDDLKECKPTLIVNDVFDAVTKTLEKYA 352
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352

Chain B from PDB  Type:PROTEIN  Length:352
 aligned with YK50_YEAST | P36151 from UniProtKB/Swiss-Prot  Length:352

    Alignment length:352
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350  
           YK50_YEAST     1 MIGKRFFQTTSKKIAFAFDIDGVLFRGKKPIAGASDALKLLNRNKIPYILLTNGGGFSERARTEFISSKLDVDVSPLQIIQSHTPYKSLVNKYSRILAVGTPSVRGVAEGYGFQDVVHQTDIVRYNRDIAPFSGLSDEQVMEYSRDIPDLTTKKFDAVLVFNDPHDWAADIQIISDAINSENGMLNTLRNEKSGKPSIPIYFSNQDLLWANPYKLNRFGQGAFRLLVRRLYLELNGEPLQDYTLGKPTKLTYDFAHHVLIDWEKRLSGKIGQSVKQKLPLLGTKPSTSPFHAVFMVGDNPASDIIGAQNYGWNSCLVKTGVYNEGDDLKECKPTLIVNDVFDAVTKTLEKYA 352
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeeeee......ee..ee..hhhhhhhhhhhh...eeee......hhhhhhhhhhhhhh...hhh.ee..hhhhhhhh....eeeee...hhhhhhhhhh..eeeehhhhhhhhhhhh.....hhhhhhhhh............eeee.....hhhhhhhhhhhhhh....................eee.....ee.......eehhhhhhhhhhhhhhhhhh.....ee....hhhhhhhhhhhhhhhhhhhh......................eeeeeeee....hhhhhhhhhh.eeeee.................eee.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rf6 B   1 MIGKRFFQTTSKKIAFAFAIDGVLFRGKKPIAGASDALKLLNRNKIPYILLTNGGGFSERARTEFISSKLDVDVSPLQIIQSHTPYKSLVNKYSRILAVGTPSVRGVAEGYGFQDVVHQTDIVRYNRDIAPFSGLSDEQVMEYSRDIPDLTTKKFDAVLVFNDPHDWAADIQIISDAINSENGMLNTLRNEKSGKPSIPIYFSNQDLLWANPYKLNRFGQGAFRLLVRRLYLELNGEPLQDYTLGKPTKLTYDFAHHVLIDWEKRLSGKIGQSVKQKLPLLGTKPSTSPFHAVFMVGDNPASDIIGAQNYGWNSCLVKTGVYNEGDDLKECKPTLIVNDVFDAVTKTLEKYA 352
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350

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 3RF6)

(no "CATH Domain" information available for 3RF6)

(no "Pfam Domain" information available for 3RF6)

Asymmetric Unit(hide GO term definitions)

Chain A,B (YK50_YEAST | P36151)

molecular function
	GO:0003674	molecular_function	Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
biological process
	GO:0008150	biological_process	Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
	GO:0046474	glycerophospholipid biosynthetic process	The chemical reactions and pathways resulting in the formation of glycerophospholipids, any derivative of glycerophosphate that contains at least one O-acyl, O-alkyl, or O-alkenyl group attached to the glycerol residue.

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	Cis Peptide Bonds
		Lys A:246 - Pro A:247	[ RasMol ]
		Lys B:246 - Pro B:247	[ RasMol ]

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	YK50_YEAST \| P36151	:	3kc2

3kc2	RELATED ID: APC7327 RELATED DB: TARGETDB

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Ligands, Modified Residues, Ions (3, 7)

Sites (7, 7)

SS Bonds (0, 0)

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