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Title :   CRYSTAL STRUCTURE OF PHOSPHOGLYCERATE KINASE FROM BACILLUS ANTHRACIS

Authors :   H. Zheng, M. Chruszcz, P. Porebski, M. Kudritska, S. Grimshaw, A. Savch W. F. Anderson, W. Minor, Center For Structural Genomics Of Infe Diseases (Csgid)

Date :   01 Dec 11 (Deposition) - 11 Jan 12 (Release) - 23 May 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.68

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

Keywords :   Anthrax, Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Rossmann Fold, Phosphoglycerate Kinase, Phosphoglycerate, Phosphorylation, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. Zheng, E. V. Filippova, K. L. Tkaczuk, P. Dworzynski, M. Chruszcz, P. J. Porebski, Z. Wawrzak, O. Onopriyenko, M. Kudritska, S. Grimshaw A. Savchenko, W. F. Anderson, W. Minor
Crystal Structures Of Putative Phosphoglycerate Kinases Fro B. Anthracis And C. Jejuni.
J. Struct. Funct. Genom. V. 13 15 2012
PubMed-ID: 22403005 | Reference-DOI: 10.1007/S10969-012-9131-9

Molecule 1 - PHOSPHOGLYCERATE KINASE
	Chains	:	A
	EC Number	:	2.7.2.3
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMCSG7
	Expression System Strain	:	BL21-CODONPLUS(DE3)-RIPL
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	BAS4988, BA_5367, GBAA_5367, PGK
	Mutation	:	YES
	Organism Common	:	ANTHRAX,ANTHRAX BACTERIUM
	Organism Scientific	:	BACILLUS ANTHRACIS
	Organism Taxid	:	1392
	Strain	:	STERNE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (5, 20)

No.	Name	Count	Type	Full Name
1	BTB	1	Ligand/Ion	2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
2	CL	5	Ligand/Ion	CHLORIDE ION
3	MG	1	Ligand/Ion	MAGNESIUM ION
4	MSE	12	Mod. Amino Acid	SELENOMETHIONINE
5	UNL	1	Ligand/Ion	UNKNOWN LIGAND

Biological Unit 1 (3, 14)

No.	Name	Count	Type	Full Name
1	BTB	1	Ligand/Ion	2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	MSE	12	Mod. Amino Acid	SELENOMETHIONINE
5	UNL	1	Ligand/Ion	UNKNOWN LIGAND

Biological Unit 2 (3, 28)

No.	Name	Count	Type	Full Name
1	BTB	2	Ligand/Ion	2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	MSE	24	Mod. Amino Acid	SELENOMETHIONINE
5	UNL	2	Ligand/Ion	UNKNOWN LIGAND

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:206 , PHE A:249	BINDING SITE FOR RESIDUE CL A 395
2	AC2	SOFTWARE	GLY A:195 , ALA A:196 , GLY A:220 , HOH A:512	BINDING SITE FOR RESIDUE CL A 396
3	AC3	SOFTWARE	LYS A:256 , LYS A:383 , GLU A:384	BINDING SITE FOR RESIDUE CL A 397
4	AC4	SOFTWARE	GLY A:317 , GLY A:350 , ASP A:352 , SER A:353 , HOH A:678	BINDING SITE FOR RESIDUE CL A 398
5	AC5	SOFTWARE	LYS A:180 , GLU A:186 , LEU A:312 , HOH A:446 , HOH A:449	BINDING SITE FOR RESIDUE CL A 399
6	AC6	SOFTWARE	HOH A:403 , HOH A:404 , HOH A:405 , HOH A:406 , HOH A:407 , HOH A:408	BINDING SITE FOR RESIDUE MG A 400
7	AC7	SOFTWARE	ARG A:187 , ASP A:210 , LYS A:211 , VAL A:212 , ASP A:213 , LYS A:256 , GLU A:384 , HOH A:523 , HOH A:562 , HOH A:567 , HOH A:712	BINDING SITE FOR RESIDUE BTB A 401

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

Asymmetric Unit

No.	Residues
1	Arg A:187	-	Pro A:188

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

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PGLYCERATE_KINASE	PS00111	Phosphoglycerate kinase signature.	PGK_BACAN	15-25	1	A:15-25

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PGLYCERATE_KINASE	PS00111	Phosphoglycerate kinase signature.	PGK_BACAN	15-25	1	A:15-25

Biological Unit 2 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PGLYCERATE_KINASE	PS00111	Phosphoglycerate kinase signature.	PGK_BACAN	15-25	2	A:15-25

(no "Exon" information available for 3UWD)

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:392
 aligned with PGK_BACAN | Q81X75 from UniProtKB/Swiss-Prot  Length:394

    Alignment length:394
                                    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       360       370       380       390    
            PGK_BACAN     1 MNKKSIRDVDLKGKRVFCRVDFNVPMKEGKITDETRIRAALPTIQYLVEQGAKVILASHLGRPKGQAVEELRLTPVAARLGELLGKDVKKADEAFGPVAQEMVAAMNEGDVLVLENVRFYAGEEKNDAELAKEFAALADIFVNDAFGAAHRAHASTAGIADYLPAVSGLLMEKELEVLGKALSNPERPFTAIIGGAKVKDKIGLIRHLLDKVDNLIIGGGLAYTFVKALGHEIGLSLCEDDKIELAKEFMQLAKEKGVNFYMPVDVVITEEFSETATTKIVGIDSIPSNWEGVDIGPKTREIYADVIKNSKLVVWNGPMGVFEMTPFAEGTKAVGQALADAEGTYSVIGGGDSAAAVEKFGMADKMSHISTGGGASLEFMEGKELPGVVCLNDK 394
               SCOP domains d3uwda_ A: automated match  es                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhh.....eeeee.......--.....hhhhhhhhhhhhhhhhh..eeeee..........hhhhhhhhhhhhhhhhhh...ee.....hhhhhhhhhh.....eee..hhhhhhhhhhhhhhhhhhhhh...eeee.hhhhh.......hhhhhh..eeehhhhhhhhhhhhhhhhh....eeeee...hhhhhhhhhhhhh....eeee...hhhhhhhhh.........hhhhhhhhhhhhhhhhhhh.eee...eeeee........eeeee.hhh....eeeeehhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhhhh...eeee.hhhhhhhhhhh.hhhhh.ee...hhhhhhhhh...hhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------PGLYCERATE_--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3uwd A   1 mNKKSIRDVDLKGKRVFCRVDFNVPm--GKITDETRIRAALPTIQYLVEQGAKVILASHLGRPKGQAVEELRLTPVAARLGELLGKDVKKADEAFGPVAQEmVAAmNEGDVLVLENVRFYAGEEKNDAELAKEFAALADIFVNDAFGAAHRAHASTAGIADYLPAVSGLLmEKELEVLGKALSNPERPFAAIIGGAKVKDKIGLIRHLLDKVDNLIIGGGLAYTFVKALGHEIGLSLCEDDKIELAKEFmQLAKEKGVNFYmPVDVVITEEFSETATTKIVGIDSIPSNWEGVDIGPKTREIYADVIKNSKLVVWNGPmGVFEmTPFAEGTKAVGQALADAEGTYSVIGGGDSAAAVEKFGmADKmSHISTGGGASLEFmEGKELPGVVCLNDK 394
                            |       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       360 |   | 370       380       390    
                            |                       26-MSE                                                                     102-MSE                                                              171-MSE                                                                        250-MSE     262-MSE                                                  319-MSE|                                   362-MSE           380-MSE          
                            1-MSE                                                                                                  106-MSE                                                                                                                                                                                                                   324-MSE                                   366-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: Phosphoglycerate kinase (42)

Superfamily: Phosphoglycerate kinase (42)

Family: Phosphoglycerate kinase (39)

Protein domain: automated matches (23)

Anthrax bacillus (Bacillus anthracis) [TaxId: 1392] (1)

d3uwda_

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

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

Asymmetric Unit(hide GO term definitions)

Chain A (PGK_BACAN | Q81X75)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0016301	kinase activity	Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	GO:0004618	phosphoglycerate kinase activity	Catalysis of the reaction: 3-phospho-D-glycerate + ATP = 3-phospho-D-glyceroyl phosphate + ADP + H(+).
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0006096	glycolytic process	The chemical reactions and pathways resulting in the breakdown of a carbohydrate into pyruvate, with the concomitant production of a small amount of ATP and the reduction of NAD(P) to NAD(P)H. Glycolysis begins with the metabolism of a carbohydrate to generate products that can enter the pathway and ends with the production of pyruvate. Pyruvate may be converted to acetyl-coenzyme A, ethanol, lactate, or other small molecules.
	GO:0016310	phosphorylation	The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
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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	Cis Peptide Bonds
		Arg A:187 - Pro A:188	[ RasMol ]

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Description

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Ligands, Modified Residues, Ions (5, 20)

Sites (7, 7)

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