1V0P - JenaLib

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Title :   STRUCTURE OF P. FALCIPARUM PFPK5-PURVALANOL B LIGAND COMPLEX

Authors :   S. Holton, A. Merckx, D. Burgess, C. Doerig, M. Noble, J. Endicott

Date :   01 Apr 04 (Deposition) - 06 May 04 (Release) - 31 Mar 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Transferase, Serine/Threonine-Protein Kinase, Atp-Binding, Phosphorylation, Cdk (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. Holton, A. Merckx, D. Burgess, C. Doerig, M. Noble, J. Endicott
Structures Of P. Falciparum Pfpk5 Test The Cdk Regulation Paradigm And Suggest Mechanisms Of Small Molecule Inhibition
Structure V. 11 1329 2003
PubMed-ID: 14604523 | Reference-DOI: 10.1016/J.STR.2003.09.020

Molecule 1 - CELL DIVISION CONTROL PROTEIN 2 HOMOLOG
	Chains	:	A, B
	EC Number	:	2.7.1.22, 2.7.1.23
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Mutation	:	YES
	Organism Scientific	:	PLASMODIUM FALCIPARUM
	Organism Taxid	:	5833
	Synonym	:	PFPK5

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	PVB	2	Ligand/Ion	PURVALANOL B

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	PVB	1	Ligand/Ion	PURVALANOL B

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	PVB	1	Ligand/Ion	PURVALANOL B

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ILE A:10 , GLY A:11 , GLU A:12 , GLY A:13 , ALA A:30 , GLU A:80 , LEU A:82 , ASP A:83 , ASP A:85 , GLN A:129 , LEU A:132 , ALA A:142 , HOH A:2144 , HOH A:2145	BINDING SITE FOR RESIDUE PVB A1287
2	AC2	SOFTWARE	ILE B:10 , GLY B:11 , GLU B:12 , GLY B:13 , ALA B:30 , PHE B:79 , GLU B:80 , HIS B:81 , LEU B:82 , ASP B:83 , ASP B:85 , GLN B:129 , LEU B:132 , ALA B:142	BINDING SITE FOR RESIDUE PVB B1287

(no "SS Bond" information available for 1V0P)

(no "Cis Peptide Bond" information available for 1V0P)

(no "SAP(SNP)/Variant" information available for 1V0P)

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PROTEIN_KINASE_ATP	PS00107	Protein kinases ATP-binding region signature.	CDC2H_PLAFK	10-32	2	A:10-32 B:10-32
2	PROTEIN_KINASE_ST	PS00108	Serine/Threonine protein kinases active-site signature.	CDC2H_PLAFK	121-133	2	A:121-133 B:121-133

Biological Unit 1 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PROTEIN_KINASE_ATP	PS00107	Protein kinases ATP-binding region signature.	CDC2H_PLAFK	10-32	1	A:10-32 -
2	PROTEIN_KINASE_ST	PS00108	Serine/Threonine protein kinases active-site signature.	CDC2H_PLAFK	121-133	1	A:121-133 -

Biological Unit 2 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PROTEIN_KINASE_ATP	PS00107	Protein kinases ATP-binding region signature.	CDC2H_PLAFK	10-32	1	- B:10-32
2	PROTEIN_KINASE_ST	PS00108	Serine/Threonine protein kinases active-site signature.	CDC2H_PLAFK	121-133	1	- B:121-133

(no "Exon" information available for 1V0P)

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:277
 aligned with CDC2H_PLAFK | Q07785 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:286
                                    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      
          CDC2H_PLAFK     1 MEKYHGLEKIGEGTYGVVYKAQNNYGETFALKKIRLEKEDEGIPSTTIREISILKELKHSNIVKLYDVIHTKKRLVLVFEHLDQDLKKLLDVCEGGLESVTAKSFLLQLLNGIAYCHDRRVLHRDLKPQNLLINREGELKIADFGLARAFGIPVRKYTHEVVTLWYRAPDVLMGSKKYSTTIDIWSVGCIFAEMVNGTPLFPGVSEADQLMRIFRILGTPNSKNWPNVTELPKYDPNFTVYEPLPWESFLKGLDESGIDLLSKMLKLDPNQRITAKQALEHAYFKE 286
               SCOP domains d1v0pa_ A: Cyclin-dependent PK, CDK2                                                                                                                                                                                                                                                           SCOP domains
               CATH domains 1v0pA01 A:1-81 Phosphorylase Kinase; domain 1                                    1v0pA02 A:82-286 Transferase(Phosphotransferase) domain 1                                                                                                                                                     CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeee..eeeeeeee....eeeeeee.........hhhhhhhhhhhhhh.......eeeeee....eeeeee...eehhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee...hhhhhhh---------.......hhhhhh......hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh........hhhhh.............hhhhh....hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------PROTEIN_KINASE_ATP     ----------------------------------------------------------------------------------------PROTEIN_KINAS--------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v0p A   1 MEKYHGLEKIGEGTYGVVYKAQNNYGETFALKKIRLEKEDEGIPSTTIREISILKELKHSNIVKLYDVIHTKKRLVLVFEHLDQDLKKLLDVCEGGLESVTAKSFLLQLLNGIAYCHDRRVLHRDLKPQNLLINREGELKIADFGLARAFG---------IVTLWYRAPDVLMGSKKYSTTIDIWSVGCIFAEMVNGTPLFPGVSEADQLMRIFRILGTPNSKNWPNVTELPKYDPNFTVYEPLPWESFLKGLDESGIDLLSKMLKLDPNQRITAKQALEHAYFKE 286
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150|        -|      170       180       190       200       210       220       230       240       250       260       270       280      
                                                                                                                                                                                151       161

Chain B from PDB  Type:PROTEIN  Length:258
 aligned with CDC2H_PLAFK | Q07785 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:285
                                    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     
          CDC2H_PLAFK     2 EKYHGLEKIGEGTYGVVYKAQNNYGETFALKKIRLEKEDEGIPSTTIREISILKELKHSNIVKLYDVIHTKKRLVLVFEHLDQDLKKLLDVCEGGLESVTAKSFLLQLLNGIAYCHDRRVLHRDLKPQNLLINREGELKIADFGLARAFGIPVRKYTHEVVTLWYRAPDVLMGSKKYSTTIDIWSVGCIFAEMVNGTPLFPGVSEADQLMRIFRILGTPNSKNWPNVTELPKYDPNFTVYEPLPWESFLKGLDESGIDLLSKMLKLDPNQRITAKQALEHAYFKE 286
               SCOP domains d1v0pb_ B: Cyclin-dependent PK,            CDK2                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1v0pB01 B:2-83 Phosphorylase Ki           nase; domain 1                          1v0pB02 B:84-286 Transferase(Phosphotransferase) domain 1                                                                                                                                                   CATH domains
           Pfam domains (1) --Pkinase-1v0pB01 B:4-284                                                                                                                                                                                                                                                                  -- Pfam domains (1)
           Pfam domains (2) --Pkinase-1v0pB02 B:4-284                                                                                                                                                                                                                                                                  -- Pfam domains (2)
         Sec.struct. author ...eeeeeeeee..eeeeeee.....eeeee-----------hhhhhhhhhhhhhh.......eeeee..---.eeee....eehhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee...hhhhhh-------------....hhhhhh......hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh........hhhhh.............hhhhhh...hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------PROTEIN_KINASE_ATP     ----------------------------------------------------------------------------------------PROTEIN_KINAS--------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v0p B   2 EKYHGLEKIGEGTYGVVYKAQNNYGETFALK-----------PSTTIREISILKELKHSNIVKLYDVIHT---LVLVFEHLDQDLKKLLDVCEGGLESVTAKSFLLQLLNGIAYCHDRRVLHRDLKPQNLLINREGELKIADFGLARAF-------------LWYRAPDVLMGSKKYSTTIDIWSVGCIFAEMVNGTPLFPGVSEADQLMRIFRILGTPNSKNWPNVTELPKYDPNFTVYEPLPWESFLKGLDESGIDLLSKMLKLDPNQRITAKQALEHAYFKE 286
                                    11        21        31|        -  |     51        61        71   |    81        91       101       111       121       131       141        |-         -  |    171       181       191       201       211       221       231       241       251       261       271       281     
                                                         32          44                         71  75                                                                        150           164

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) (23004)

Fold: Protein kinase-like (PK-like) (2589)

Superfamily: Protein kinase-like (PK-like) (2589)

Family: Protein kinases, catalytic subunit (1977)

Protein domain: Cyclin-dependent PK, CDK2 (340)

Malaria parasite (Plasmodium falciparum) [TaxId: 5833] (4)

1a	d1v0pa_	A:
1b	d1v0pb_	B:

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PKinase (934)

Family: Pkinase (680)

Plasmodium falciparum (isolate K1 / Thailand) (4)

1a	Pkinase-1v0pB01	B:4-284
1b	Pkinase-1v0pB02	B:4-284

Asymmetric Unit(hide GO term definitions)

Chain A,B (CDC2H_PLAFK | Q07785)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0008353	RNA polymerase II carboxy-terminal domain kinase activity	Catalysis of the reaction: ATP + (DNA-directed RNA polymerase II) = ADP + phospho-(DNA-directed RNA polymerase II); phosphorylation occurs on residues in the carboxy-terminal domain (CTD) repeats.
	GO:0004693	cyclin-dependent protein serine/threonine kinase activity	Catalysis of the reactions: ATP + protein serine = ADP + protein serine phosphate, and ATP + protein threonine = ADP + protein threonine phosphate. This reaction requires the binding of a regulatory cyclin subunit and full activity requires stimulatory phosphorylation by a CDK-activating kinase (CAK).
	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:0004672	protein kinase activity	Catalysis of the phosphorylation of an amino acid residue in a protein, usually according to the reaction: a protein + ATP = a phosphoprotein + ADP.
	GO:0004674	protein serine/threonine kinase activity	Catalysis of the reactions: ATP + protein serine = ADP + protein serine phosphate, and ATP + protein threonine = ADP + protein threonine phosphate.
	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: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.
	GO:0006468	protein phosphorylation	The process of introducing a phosphate group on to a protein.
	GO:0051726	regulation of cell cycle	Any process that modulates the rate or extent of progression through the cell cycle.
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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	2.7.1.22
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	2.7.1.23
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	CDC2H_PLAFK \| Q07785	:	1lch 1ob3 1v0b 1v0o

1lch	THEORETICAL MODEL OF CELL DIVISION CONTROL PROTEIN LIKEPROTEIN KINASE FROM HUMAN MALARIA PARASITE PLASMODIUMFALCIPARUM
1ob3	STRUCTURE OF P. FALCIPARUM PFPK5
1v0b	CRYSTAL STRUCTURE OF THE T198A MUTANT OF PFPK5
1v0o	STRUCTURE OF P. FALCIPARUM PFPK5-INDIRUBIN-5 -SULPHONATE LIGAND COMPLEX

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