4KIN - JenaLib

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Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

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Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF MITOGEN-ACTIVATED PROTEIN KINASE 14 (P38-H5) COMPLEX WITH 5-(2-CHLOROPHENYL)-N-(5-(CYCLOPROPYLCARBAMOYL)-2-METHYLPHENYL)-2-THIOPHENECARBOXAMIDE

Authors :   J. S. Sack, J. S. Tokarski

Date :   02 May 13 (Deposition) - 12 Jun 13 (Release) - 07 Aug 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.97

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

Keywords :   Serine/Threonine-Protein Kinase, Kinase, Transferase, P38 Map Kinase, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. T. Wrobleski, S. Lin, T. G. Murali Dhar, A. J. Dyckman, T. Li, S. Pitt R. Zhang, Y. Fan, A. M. Doweyko, J. S. Tokarski, K. F. Kish, S. E. Kiefer, J. S. Sack, J. A. Newitt, M. R. Witmer, M. Mckinnon, J. C. Barrish, J. H. Dodd, G. L. Schieven, K. Leftheris
The Identification Of Novel P38-Alpha Isoform Selective Kinase Inhibitors Having An Unprecedented P38-Alpha Binding Mode
Bioorg. Med. Chem. Lett. V. 23 4120 2013
PubMed-ID: 23746475 | Reference-DOI: 10.1016/J.BMCL.2013.05.047

Molecule 1 - MITOGEN-ACTIVATED PROTEIN KINASE 14
	Chains	:	A, B, C, D
	EC Number	:	2.7.11.24
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Cell Line	:	BL21 DE3
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	CSBP, CSBP1, CSBP2, CSPB1, MAPK14, MXI2, SAPK2A
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	MAP KINASE 14, MAPK 14, CYTOKINE SUPPRESSIVE ANTI- INFLAMMATORY DRUG-BINDING PROTEIN, CSAID-BINDING PROTEIN, CSBP, MAP KINASE MXI2, MAX-INTERACTING PROTEIN 2, MITOGEN-ACTIVATED PROTEIN KINASE P38 ALPHA, MAP KINASE P38 ALPHA, STRESS-ACTIVATED PROTEIN KINASE 2A, SAPK2A

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	1M8	4	Ligand/Ion	5-(2-CHLOROPHENYL)-N-[5-(CYCLOPROPYLCARBAMOYL)-2-METHYLPHENYL]THIOPHENE-2-CARBOXAMIDE

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	1M8	1	Ligand/Ion	5-(2-CHLOROPHENYL)-N-[5-(CYCLOPROPYLCARBAMOYL)-2-METHYLPHENYL]THIOPHENE-2-CARBOXAMIDE

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	1M8	1	Ligand/Ion	5-(2-CHLOROPHENYL)-N-[5-(CYCLOPROPYLCARBAMOYL)-2-METHYLPHENYL]THIOPHENE-2-CARBOXAMIDE

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	1M8	1	Ligand/Ion	5-(2-CHLOROPHENYL)-N-[5-(CYCLOPROPYLCARBAMOYL)-2-METHYLPHENYL]THIOPHENE-2-CARBOXAMIDE

Biological Unit 4 (1, 1)

No.	Name	Count	Type	Full Name
1	1M8	1	Ligand/Ion	5-(2-CHLOROPHENYL)-N-[5-(CYCLOPROPYLCARBAMOYL)-2-METHYLPHENYL]THIOPHENE-2-CARBOXAMIDE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	VAL A:30 , ALA A:51 , LYS A:53 , GLU A:71 , LEU A:75 , ILE A:84 , LEU A:104 , THR A:106 , LEU A:108 , ALA A:111 , ALA A:157 , ASP A:168 , PHE A:169 , HOH A:622 , HOH A:724	BINDING SITE FOR RESIDUE 1M8 A 401
2	AC2	SOFTWARE	VAL B:30 , ALA B:51 , LYS B:53 , GLU B:71 , LEU B:75 , ILE B:84 , LEU B:104 , THR B:106 , HIS B:107 , LEU B:108 , ALA B:111 , ALA B:157 , ASP B:168 , PHE B:169 , LEU B:171 , HOH B:506 , HOH B:615	BINDING SITE FOR RESIDUE 1M8 B 401
3	AC3	SOFTWARE	ALA C:51 , LYS C:53 , GLU C:71 , LEU C:75 , ILE C:84 , LEU C:104 , THR C:106 , LEU C:108 , GLY C:110 , ALA C:111 , LEU C:167 , ASP C:168 , PHE C:169 , HOH C:585 , HOH C:596	BINDING SITE FOR RESIDUE 1M8 C 401
4	AC4	SOFTWARE	TYR D:35 , VAL D:38 , ALA D:51 , LYS D:53 , GLU D:71 , LEU D:75 , ILE D:84 , LEU D:104 , THR D:106 , LEU D:108 , GLY D:110 , ALA D:111 , ASP D:112 , LEU D:167 , ASP D:168 , PHE D:169 , HOH D:524	BINDING SITE FOR RESIDUE 1M8 D 401

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

Asymmetric Unit

No.	Residues
1	Trp A:197	-	Met A:198
2	Tyr B:182	-	Val B:183
3	Asn B:196	-	Trp B:197
4	Met B:198	-	His B:199
5	Met C:198	-	His C:199

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

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

(no "Exon" information available for 4KIN)

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:338
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains d4kina_ A: MAP kinase p38                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee..eeeeee..eeeeeeeeee..eeeeeeee.....eeeeeee.....hhhhhhhhhhhhhhhhhh.........eee....hhhhh...eeeee...ee........hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee...............hhhhhh.......hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh..hhhhhh...hhhhhhhhhh.......hhhhh....hhhhhhhhhhhh........hhhhhhhhhhhh...hhhhh.......hhhhhh..hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kin A   5 RPTFYRQELNKTIWEVPERYQNLSPVGSGAYGSVCAAFDTKTGLRVAVKKLSRPFQSIIHAKRTYRELRLLKHMKHENVIGLLDVFTPARSLEEFNDVYLVTHLMGADLNVKCQKLTDDHVQFLIYQILRGLKYIHSADIIHRDLKPSNLAVNEDCELKILDFGLARYVATRWYRAPEIMLNWMHYNQTVDIWSVGCIMAELLTGRTLFPGTDHIDQLKLILRLVGTPGAELLKKISSESARNYIQSLTQMPKMNFANVFIGANPLAVDLLEKMLVLDSDKRITAAQALAHAYFAQYHDPDDEPVADPYDQSFESRDLLIDEWKSLTYDEVISFVPPP 352
                                    14        24        34        44        54        64        74        84        94       104       114|      126       136       146       156       166      |184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344        
                                                                                                                                       114|                                                     173|                                                                                                                                                                          
                                                                                                                                        117                                                      182

Chain B from PDB  Type:PROTEIN  Length:341
                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4kinb_ B: MAP kinase p38                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee..eeeeee..eeeeeeeeee..eeeeeeee.....eeeeeee.....hhhhhhhhhhhhhhhhhh.........eee....hhhhh...eeeee...eehhhhh.....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee...............hhhhh........hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh..hhhhhh...hhhhhhhhhh.......hhhhh....hhhhhhhhhhhh........hhhhhhhhhhhh...hhhhh.......hhhhhh..hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kin B   4 ERPTFYRQELNKTIWEVPERYQNLSPVGSGAYGSVCAAFDTKTGLRVAVKKLSRPFQSIIHAKRTYRELRLLKHMKHENVIGLLDVFTPARSLEEFNDVYLVTHLMGADLNNIVKCQKLTDDHVQFLIYQILRGLKYIHSADIIHRDLKPSNLAVNEDCELKILDFGLARYVATRWYRAPEIMLNWMHYNQTVDIWSVGCIMAELLTGRTLFPGTDHIDQLKLILRLVGTPGAELLKKISSESARNYIQSLTQMPKMNFANVFIGANPLAVDLLEKMLVLDSDKRITAAQALAHAYFAQYHDPDDEPVADPYDQSFESRDLLIDEWKSLTYDEVISFVPPP 352
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173|      191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351 
                                                                                                                                                                                                   173|                                                                                                                                                                          
                                                                                                                                                                                                    182

Chain C from PDB  Type:PROTEIN  Length:338
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains d4kinc_ C: MAP kinase p38                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee..eeeeee..eeeeee....eeeeeeee.....eeeeeee.....hhhhhhhhhhhhhhhhhh.........eee....hhhhh...eeeee...eehhhhhh....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee...............hhhhhh......hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh..hhhhhh...hhhhhhhhhh.......hhhhh....hhhhhhhhhhhh........hhhhhhhhhhhh...hhhhh.......hhhhhh..hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kin C   4 ERPTFYRQELNKTIWEVPERYQNLSPVGAYGSVCAAFDTKTGLRVAVKKLSRPFQSIIHAKRTYRELRLLKHMKHENVIGLLDVFTPARSLEEFNDVYLVTHLMGADLNNIVKCQKLTDDHVQFLIYQILRGLKYIHSADIIHRDLKPSNLAVNEDCELKILDFGLARHATRWYRAPEIMLNWMHYNQTVDIWSVGCIMAELLTGRTLFPGTDHIDQLKLILRLVGTPGAELLKKISSESARNYIQSLTQMPKMNFANVFIGANPLAVDLLEKMLVLDSDKRITAAQALAHAYFAQYHDPDDEPVADPYDQSFESRDLLIDEWKSLTYDEVISFVPPP 352
                                    13        23      ||35        45        55        65        75        85        95       105       115       125       135       145       155       165       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344        
                                                     30|                                                                                                                                          174|                                                                                                                                                                        
                                                      33                                                                                                                                           184

Chain D from PDB  Type:PROTEIN  Length:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4kind_ D: MAP kinase p38                                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee..eeeeee..eeeeee.....eeeeee.....eeeeee......hhhhhhhhhhhhhhhhhh.........eee....hhhhh...eeeee...eehhhhhh....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee..............hhhhhh.......hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh..hhhhhh...hhhhhhhhhhh......hhhhh....hhhhhhhhhhhh........hhhhhhhhhhhh...hhhhh.......hhhhhh..hhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kin D   4 ERPTFYRQELNKTIWEVPERYQNLSPVAYGSVCAAFDTKTGLRVAVKKLSRPFQSIIHAKRTYRELRLLKHMKHENVIGLLDVFTPARSLEEFNDVYLVTHLMGADLNNIVKCQKLTDDHVQFLIYQILRGLKYIHSADIIHRDLKPSNLAVNEDCELKILDFGLARHATRWYRAPEIMLNWMHYNQTVDIWSVGCIMAELLTGRTLFPGTDHIDQLKLILRLVGTPGAELLKKISSESARNYIQSLTQMPKMNFANVFIGANPLAVDLLEKMLVLDSDKRITAAQALAHAYFAQYHDPDDEPVADPYDQSFESRDLLIDEWKSLTYDEVISFVPPPLD 354
                                    13        23      ||36        46        56        66        76        86        96       106       116       126       136       146       156       166       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345         
                                                     30|                                                                                                                                         174|                                                                                                                                                                          
                                                      34                                                                                                                                          184

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: MAP kinase p38 (184)

Human (Homo sapiens) [TaxId: 9606] (162)

1a	d4kina_	A:
1b	d4kinb_	B:
1c	d4kinc_	C:
1d	d4kind_	D:

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

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

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Cis Peptide Bonds
		Asn B:196 - Trp B:197	[ RasMol ]
		Met B:198 - His B:199	[ RasMol ]
		Met C:198 - His C:199	[ RasMol ]
		Trp A:197 - Met A:198	[ RasMol ]
		Tyr B:182 - Val B:183	[ RasMol ]

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	2.7.11.24
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Description

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Ligands, Modified Residues, Ions (1, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (5, 5)

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