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Title :   CRYSTAL STRUCTURE OF PIM-1 KINASE IN COMPLEX WITH (2E,5Z)-2-(2-CHLOROPHENYLIMINO)-5-(4-HYDROXY-3-METHOXYBENZYLIDENE)THIAZOLIDIN-4-ONE

Authors :   L. J. Parker, N. Handa, S. Yokoyama

Date :   13 Apr 12 (Deposition) - 08 Aug 12 (Release) - 03 Oct 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

Chains :   Asym./Biol. Unit : A

Keywords :   Pim-1 Kinase, Transferase-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. J. Parker, H. Watanabe, K. Tsuganezawa, Y. Tomabechi, N. Handa, M. Shirouzu, H. Yuki, T. Honma, N. Ogawa, T. Nagano, S. Yokoyama, A. Tanaka
Flexibility Of The P-Loop Of Pim-1 Kinase: Observation Of A Novel Conformation Induced By Interaction With An Inhibitor
Acta Crystallogr. , Sect. F V. 68 860 2012
PubMed-ID: 22869110 | Reference-DOI: 10.1107/S1744309112027108

Molecule 1 - SERINE/THREONINE-PROTEIN KINASE PIM-1
	Chains	:	A
	EC Number	:	2.7.11.1
	Engineered	:	YES
	Expression System	:	CELL-FREE PROTEIN SYNTHESIS
	Expression System Plasmid	:	PCR2.1-TOPO
	Expression System Vector Type	:	PLASMID
	Fragment	:	PROTEIN KINASE DOMAIN, UNP RESIDUES 120-404
	Gene	:	PIM1
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (4, 4)

No.	Name	Count	Type	Full Name
1	DMS	1	Ligand/Ion	DIMETHYL SULFOXIDE
2	GOL	1	Ligand/Ion	GLYCEROL
3	J19	1	Ligand/Ion	(2Z,5Z)-2-[(2-CHLOROPHENYL)IMINO]-5-(4-HYDROXY-3-METHOXYBENZYLIDENE)-1,3-THIAZOLIDIN-4-ONE
4	PO4	1	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PHE A:130 , ILE A:133 , ASP A:170 , ASP A:234 , GLY A:238 , ASP A:239	BINDING SITE FOR RESIDUE DMS A 401
2	AC2	SOFTWARE	GLN A:127 , ASP A:128 , ASP A:131 , J19 A:404	BINDING SITE FOR RESIDUE GOL A 402
3	AC3	SOFTWARE	ARG A:258 , SER A:260 , SER A:261 , HOH A:556	BINDING SITE FOR RESIDUE PO4 A 403
4	AC4	SOFTWARE	GLY A:45 , SER A:46 , PHE A:49 , GLY A:50 , VAL A:52 , ALA A:65 , LYS A:67 , LEU A:120 , GLU A:121 , VAL A:126 , LEU A:174 , ASP A:186 , GOL A:402	BINDING SITE FOR RESIDUE J19 A 404

(no "SS Bond" information available for 4ENY)

Asymmetric/Biological Unit

No.	Residues
1	Glu A:124	-	Pro A:125

(no "SAP(SNP)/Variant" information available for 4ENY)

(no "PROSITE Motif" information available for 4ENY)

(no "Exon" information available for 4ENY)

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
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Chain A from PDB  Type:PROTEIN  Length:261
                                                                                                                                                                                                                                                                                                     
               SCOP domains d4enya_ A: Proto-oncogene serine/threonine-protein kinase Pim-1                                                                                                                                                                                                       SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee...eeeeeee.....eeeeeeee.hhh......hhhhhhhhhh........eeeeee...eeeeeee....eeehhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eeee....eeee......ee...........hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh.....hhhhhhhh........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhh...hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4eny A  37 QYQVGPLLGSGFGSVYSGIRVSDNLPVAIKHVEKDRISDWGRVPMEVVLLKKVSSFSGVIRLLDWFERPDSFVLILERPEPVQDLFDFITERGALQEELARSFFWQVLEAVRHCHNCGVLHRDIKDENILIDLNRGELKLIDFGSGALLKDTVYTDFDGTRVYSPPEWIRYHRYHGRSAAVWSLGILLYDMVCGDIPFEHDEEIIRGQVFFRQRVSSECQHLIRWCLALRPSDRPTFEEIQNHPWMQDVLLPQETAEIHLH 305
                                    46||      57        67        77||      93    || 104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304 
                                     47|                           78|           98|                                                                                                                                                                                                             
                                      49                            85           100

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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	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(

)

Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

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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: Proto-oncogene serine/threonine-protein kinase Pim-1 (64)

Human (Homo sapiens) [TaxId: 9606] (64)

d4enya_

(no "CATH Domain" information available for 4ENY)

(no "Pfam Domain" information available for 4ENY)

Asymmetric/Biological Unit(hide GO term definitions)

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Glu A:124 - Pro A:125	[ RasMol ]

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3uix	CRYSTAL STRUCTURE OF PIM1 KINASE IN COMPLEX WITH SMALL MOLECULE INHIBITOR
3umw	CRYSTAL STRUCTURE OF PIM1 KINASE IN COMPLEX WITH INHIBITOR (Z)-2-[(1H-INDAZOL-3-YL)METHYLENE]-6-METHOXY-7-(PIPERAZIN- 1-YLMETHYL)BENZOFURAN-3(2H)-ONE
3umx	CRYSTAL STRUCTURE OF PIM1 KINASE IN COMPLEX WITH INHIBITOR (Z)-2-[(1H-INDOL-3-YL)METHYLENE]-7-(AZEPAN-1-YLMETHYL)-6- HYDROXYBENZOFURAN-3(2H)-ONE
4enx	CRYSTAL STRUCTURE OF PIM1 KINASE IN COMPLEX WITH (2E,5Z)-2- (2-CHLOROPHENYLIMINO)-5-(4-HYDROXY-3-NITROBENZYLIDENE) THIAZOLIDIN-4-ONE

Description

Compounds

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Ligands, Modified Residues, Ions (4, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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SCOP Domains (1, 1)

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