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Title :   CRYSTAL STRUCTURE OF EXOCYTOSIS-SENSITIVE PHOSPHOPROTEIN, PP63/PARAFUSIN (PHOSPHOGLUCOMUTSE) FROM PARAMECIUM. OPEN FORM

Authors :   S. Mueller, K. Diederichs, J. Breed, R. Kissmehl, K. Hauser, H. Plattner, W. Welte

Date :   22 Nov 01 (Deposition) - 16 Jan 02 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

Chains :   Asym./Biol. Unit : A,B

Keywords :   Parafusin, Phosphoprotein Pp63, Exocytosis, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. Muller, K. Diederichs, J. Breed, R. Kissmehl, K. Hauser, H. Plattner, W. Welte
Crystal Structure Analysis Of The Exocytosis-Sensitive Phosphoprotein, Pp63/Parafusin (Phosphoglucomutase), From Paramecium Reveals Significant Conformational Variability.
J. Mol. Biol. V. 315 141 2002
PubMed-ID: 11779235 | Reference-DOI: 10.1006/JMBI.2001.5168
(for further references see the PDB file header)

Molecule 1 - PHOSPHOGLUCOMUTASE 1
	Chains	:	A, B
	EC Number	:	5.4.2.2
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Scientific	:	PARAMECIUM TETRAURELIA
	Organism Taxid	:	5888

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 2)

No.	Name	Count	Type	Full Name
1	CA	2	Ligand/Ion	CALCIUM ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:126 , ASP A:308 , ASP A:310 , ASP A:312	BINDING SITE FOR RESIDUE CA A 700
2	AC2	SOFTWARE	SER B:126 , ASP B:308 , ASP B:310 , ASP B:312	BINDING SITE FOR RESIDUE CA B 700

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

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

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

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PGM_PMM	PS00710	Phosphoglucomutase and phosphomannomutase phosphoserine signature.	PGM1_PARTE	120-129	2	A:120-129 B:120-129

(no "Exon" information available for 1KFQ)

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
	(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:571
 aligned with PGM1_PARTE | P47244 from UniProtKB/Swiss-Prot  Length:572

    Alignment length:571
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571 
           PGM1_PARTE     2 QQVIPAPRVQVTQPYAGQKPGTSGLRKKVSEATQPNYLENFVQSIFNTLRKDELKPKNVLFVGGDGRYFNRQAIFSIIRLAYANDISEVHVGQAGLMSTPASSHYIRKVNEEVGNCIGGIILTASHNPGGKEHGDFGIKFNVRTGAPAPEDFTDQIYTHTTKIKEYLTVDYEFEKHINLDQIGVYKFEGTRLEKSHFEVKVVDTVQDYTQLMQKLFDFDLLKGLFSNKDFSFRFDGMHGVAGPYAKHIFGTLLGCSKESLLNCDPSEDFGGGHPDPNLTYAHDLVELLDIHKKKDVGTVPQFGAACDGDADRNMILGRQFFVTPSDSLAVIAANANLIFKNGLLGAARSMPTSGALDKVAAKNGIKLFETPTGWKFFGNLMDAGLINLCGEESFGTGSNHIREKDGIWAVLAWLTILAHKNKNTDHFVTVEEIVTQYWQQFGRNYYSRYDYEQVDSAGANKMMEHLKTKFQYFEQLKQGNKADIYDYVDPVDQSVSKNQGVRFVFGDGSRIIFRLSGTGSVGATIRIYFEQFEQQQIQHETATALANIIKLGLEISDIAQFTGRNEPTVIT 572
               SCOP domains d1kfqa1 A:2-205 Exocytosis-sensitive phosphoprotein, pp63/parafusin                                                                                                                                         d1kfqa2 A:206-323 Exocytosis-sensitive phosphoprotein, pp63/parafusin                                                 d1kfqa3 A:324-443 Exocytosis-sensitive phosphoprotein, pp63/parafusin                                                   d1kfqa4 A:444-572 Exocytosis-sensitive phosphoprotein, pp63/parafusin                                                             SCOP domains
               CATH domains ----1kfqA01 A:6-212 Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3                                                                                                                                          1kfqA02 A:213-321 Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3                                      1kfqA03 A:322-447 Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3                                                       1kfqA04 A:448-572 Major birch pollen allergen Bet v 1                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeee.............eeeehhhhh..hhhhhhhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhhhhhhh...eeeee.hhh.hhhhhhhhhhhhhhhh..eeeeeee............eeeeeee.......hhhhhhhhhhhhh...eeee...hhhhh......eeeeee.......eeeeeee..hhhhhhhhhhhhhhhhhhhhhhh....eeee....hhhhhhhhhh......hhh.ee......hhhhh........hhhhhhhh......hhhhh..eeeee......eeeee..eeehhhhhhhhhhhhhhhhh......eeee....hhhhhhhhhhh..eeee...hhhhhhhhhh.....eee...eee.......hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhheeeeeeeeeeeeehhhhhhhhhhhh.hhhhhhhhh...eeee..ee......ee....eeee.....eeeeeee.....eeeeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhh.....eee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------PGM_PMM   ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1kfq A   2 QQVIPAPRVQVTQPYAGQKPGTSGLRKKVSEATQPNYLENFVQSIFNTLRKDELKPKNVLFVGGDGRYFNRQAIFSIIRLAYANDISEVHVGQAGLMSTPASSHYIRKVNEEVGNCIGGIILTASHNPGGKEHGDFGIKFNVRTGAPAPEDFTDQIYTHTTKIKEYLTVDYEFEKHINLDQIGVYKFEGTRLEKSHFEVKVVDTVQDYTQLMQKLFDFDLLKGLFSNKDFSFRFDGMHGVAGPYAKHIFGTLLGCSKESLLNCDPSEDFGGGHPDPNLTYAHDLVELLDIHKKKDVGTVPQFGAACDGDADRNMILGRQFFVTPSDSLAVIAANANLIFKNGLLGAARSMPTSGALDKVAAKNGIKLFETPTGWKFFGNLMDAGLINLCGEESFGTGSNHIREKDGIWAVLAWLTILAHKNKNTDHFVTVEEIVTQYWQQFGRNYYSRYDYEQVDSAGANKMMEHLKTKFQYFEQLKQGNKADIYDYVDPVDQSVSKNQGVRFVFGDGSRIIFRLSGTGSVGATIRIYFEQFEQQQIQHETATALANIIKLGLEISDIAQFTGRNEPTVIT 572
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571

Chain B from PDB  Type:PROTEIN  Length:571
 aligned with PGM1_PARTE | P47244 from UniProtKB/Swiss-Prot  Length:572

    Alignment length:571
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571 
           PGM1_PARTE     2 QQVIPAPRVQVTQPYAGQKPGTSGLRKKVSEATQPNYLENFVQSIFNTLRKDELKPKNVLFVGGDGRYFNRQAIFSIIRLAYANDISEVHVGQAGLMSTPASSHYIRKVNEEVGNCIGGIILTASHNPGGKEHGDFGIKFNVRTGAPAPEDFTDQIYTHTTKIKEYLTVDYEFEKHINLDQIGVYKFEGTRLEKSHFEVKVVDTVQDYTQLMQKLFDFDLLKGLFSNKDFSFRFDGMHGVAGPYAKHIFGTLLGCSKESLLNCDPSEDFGGGHPDPNLTYAHDLVELLDIHKKKDVGTVPQFGAACDGDADRNMILGRQFFVTPSDSLAVIAANANLIFKNGLLGAARSMPTSGALDKVAAKNGIKLFETPTGWKFFGNLMDAGLINLCGEESFGTGSNHIREKDGIWAVLAWLTILAHKNKNTDHFVTVEEIVTQYWQQFGRNYYSRYDYEQVDSAGANKMMEHLKTKFQYFEQLKQGNKADIYDYVDPVDQSVSKNQGVRFVFGDGSRIIFRLSGTGSVGATIRIYFEQFEQQQIQHETATALANIIKLGLEISDIAQFTGRNEPTVIT 572
               SCOP domains d1kfqb1 B:2-205 Exocytosis-sensitive phosphoprotein, pp63/parafusin                                                                                                                                         d1kfqb2 B:206-323 Exocytosis-sensitive phosphoprotein, pp63/parafusin                                                 d1kfqb3 B:324-443 Exocytosis-sensitive phosphoprotein, pp63/parafusin                                                   d1kfqb4 B:444-572 Exocytosis-sensitive phosphoprotein, pp63/parafusin                                                             SCOP domains
               CATH domains ---1kfqB01 B:5-212 Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3                                                                                                                                           1kfqB02 B:213-321 Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3                                      1kfqB03 B:322-447 Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3                                                       1kfqB04 B:448-572 Major birch pollen allergen Bet v 1                                                                         CATH domains
           Pfam domains (1) ----------------PGM_PMM_I-1kfqB07 B:18-168                                                                                                                             --------------------------------------PGM_PMM_II-1kfqB03 B:207-320                                                                                      ----PGM_PMM_III-1kfqB01 B:325-442                                                                                         ------------PGM_PMM_IV-1kfqB05 B:455-551                                                                     --------------------- Pfam domains (1)
           Pfam domains (2) ----------------PGM_PMM_I-1kfqB08 B:18-168                                                                                                                             --------------------------------------PGM_PMM_II-1kfqB04 B:207-320                                                                                      ----PGM_PMM_III-1kfqB02 B:325-442                                                                                         ------------PGM_PMM_IV-1kfqB06 B:455-551                                                                     --------------------- Pfam domains (2)
         Sec.struct. author .......eeee.............eeeehhhhh..hhhhhhhhhhhh..hhhhhh...eeeeee....hhhhhhhhhhhhhhhh...eeeee.hhh.hhhhhhhhhhhhhhhh..eeeeeee............eeeeeee.......hhhhhhhhhhhhh...eeee...hhhhh......eeeeee.......eeeeeee..hhhhhhhhhhhhhhhhhhhhhh.....eeee....hhhhhhhhhhh.....hhh.ee......hhhhh........hhhhhhhh......hhhhh..eeeee......eeeee..eeehhhhhhhhhhhhhhhhh......eeee....hhhhhhhhhh...eeee...hhhhhhhhhh.....eee...eee.......hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhheeeeeeeeeeeeehhhhhhhhhhhhhhhhhhhhhh...eeee..ee......ee....eeee.....eeeeeee.....eeeeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhh.....eee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------PGM_PMM   ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1kfq B   2 QQVIPAPRVQVTQPYAGQKPGTSGLRKKVSEATQPNYLENFVQSIFNTLRKDELKPKNVLFVGGDGRYFNRQAIFSIIRLAYANDISEVHVGQAGLMSTPASSHYIRKVNEEVGNCIGGIILTASHNPGGKEHGDFGIKFNVRTGAPAPEDFTDQIYTHTTKIKEYLTVDYEFEKHINLDQIGVYKFEGTRLEKSHFEVKVVDTVQDYTQLMQKLFDFDLLKGLFSNKDFSFRFDGMHGVAGPYAKHIFGTLLGCSKESLLNCDPSEDFGGGHPDPNLTYAHDLVELLDIHKKKDVGTVPQFGAACDGDADRNMILGRQFFVTPSDSLAVIAANANLIFKNGLLGAARSMPTSGALDKVAAKNGIKLFETPTGWKFFGNLMDAGLINLCGEESFGTGSNHIREKDGIWAVLAWLTILAHKNKNTDHFVTVEEIVTQYWQQFGRNYYSRYDYEQVDSAGANKMMEHLKTKFQYFEQLKQGNKADIYDYVDPVDQSVSKNQGVRFVFGDGSRIIFRLSGTGSVGATIRIYFEQFEQQQIQHETATALANIIKLGLEISDIAQFTGRNEPTVIT 572
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571

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/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: TATA-Binding Protein (118)

Homologous Superfamily: Major birch pollen allergen Bet v 1 (22)

Paramecium tetraurelia. Organism_taxid: 5888. (2)

1a	1kfqA04	A:448-572
1b	1kfqB04	B:448-572

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

Topology: Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 3 (24)

Homologous Superfamily: Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3 (24)

Paramecium tetraurelia. Organism_taxid: 5888. (2)

2a	1kfqA03	A:322-447
2b	1kfqB03	B:322-447
2c	1kfqA02	A:213-321
2d	1kfqB02	B:213-321
2e	1kfqA01	A:6-212
2f	1kfqB01	B:5-212

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (PGM1_PARTE | P47244)

molecular function
	GO:0016868	intramolecular transferase activity, phosphotransferases	Catalysis of the transfer of a phosphate group from one position to another within a single molecule.
	GO:0016853	isomerase activity	Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
	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:0004614	phosphoglucomutase activity	Catalysis of the reaction: alpha-D-glucose 1-phosphate = alpha-D-glucose 6-phosphate.
biological process
	GO:0005975	carbohydrate metabolic process	The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
	GO:0071704	organic substance metabolic process	The chemical reactions and pathways involving an organic substance, any molecular entity containing carbon.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric/Biological Unit
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	PGM1_PARTE \| P47244	:	1kfi

1kfi	1KFI IS THE SAME PROTEIN IN THE CLOSED FORM

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

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Exons (0, 0)

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