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Title :   CRYSTAL STRUCTURE OF HUMAN JMJD2C CATALYTIC DOMAIN IN COMPLEX WITH EPITHERAPUETIC COMPOUND 2-(((2-((2-( DIMETHYLAMINO)ETHYL) (ETHYL)AMINO)-2-OXOETHYL)AMINO)METHYL) ISONICOTINIC ACID

Authors :   V. Cecatiello, S. Pasqualato

Date :   09 Oct 15 (Deposition) - 21 Oct 15 (Release) - 21 Oct 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

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

Keywords :   Oxidoreductase, Transcription Regulation, Metal Binding, Demethylase, Lysine-Specific Demethylase 4C, (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   V. Cecatiello, S. Pasqualato
Crystal Structures Of Human Jmjd2C Catalytic Domain Bound To Inhibitors
To Be Published
PubMed: search

Molecule 1 - LYSINE-SPECIFIC DEMETHYLASE 4C
	Chains	:	A, B
	EC Number	:	1.14.11.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PETM14
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Variant	:	PLYSS
	Expression System Vector Type	:	PLASMID
	Fragment	:	CATALYTIC DOMAIN, RESIDUES 3-347
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	JMJD2C, GENE AMPLIFIED IN SQUAMOUS CELL CARCINOMA 1 PROTEIN, GASC-1 PROTEIN, JMJC DOMAIN-CONTAINING HISTONE DEMETHYLATION PROTEIN 3C, JUMONJI DOMAIN-CONTAINING PROTEIN 2C

		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 (5, 9)

No.	Name	Count	Type	Full Name
1	CL	2	Ligand/Ion	CHLORIDE ION
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	MMK	2	Ligand/Ion	2-{[(2-{[(E)-2-(DIMETHYLAMINO)ETHENYL](ETHYL)AMINO}-2-OXOETHYL)AMINO]METHYL}PYRIDINE-4-CARBOXYLIC ACID
4	NI	2	Ligand/Ion	NICKEL (II) ION
5	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	MMK	1	Ligand/Ion	2-{[(2-{[(E)-2-(DIMETHYLAMINO)ETHENYL](ETHYL)AMINO}-2-OXOETHYL)AMINO]METHYL}PYRIDINE-4-CARBOXYLIC ACID
4	NI	-1	Ligand/Ion	NICKEL (II) ION
5	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
3	MMK	1	Ligand/Ion	2-{[(2-{[(E)-2-(DIMETHYLAMINO)ETHENYL](ETHYL)AMINO}-2-OXOETHYL)AMINO]METHYL}PYRIDINE-4-CARBOXYLIC ACID
4	NI	-1	Ligand/Ion	NICKEL (II) ION
5	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:190 , GLU A:192 , HIS A:278 , MMK A:1349 , HOH A:2178	BINDING SITE FOR RESIDUE NI A1348
2	AC2	SOFTWARE	HIS B:190 , GLU B:192 , HIS B:278 , MMK B:1349 , HOH B:2162	BINDING SITE FOR RESIDUE NI B1348
3	AC3	SOFTWARE	TYR B:134 , ASP B:137 , TYR B:179 , PHE B:187 , HIS B:190 , GLU B:192 , LYS B:208 , LYS B:243 , HIS B:278 , SER B:290 , THR B:291 , ASN B:292 , NI B:1348 , HOH B:2162 , HOH B:2255	BINDING SITE FOR RESIDUE MMK B1349
4	AC4	SOFTWARE	TYR A:134 , ASP A:137 , TYR A:179 , PHE A:187 , HIS A:190 , GLU A:192 , LYS A:208 , TRP A:210 , LYS A:243 , HIS A:278 , SER A:290 , THR A:291 , ASN A:292 , NI A:1348 , HOH A:2178	BINDING SITE FOR RESIDUE MMK A1349
5	AC5	SOFTWARE	CYS A:236 , HIS A:242 , CYS A:308 , CYS A:310	BINDING SITE FOR RESIDUE ZN A1350
6	AC6	SOFTWARE	CYS B:236 , HIS B:242 , CYS B:308 , CYS B:310	BINDING SITE FOR RESIDUE ZN B1350
7	AC7	SOFTWARE	HOH A:2274 , HOH A:2275 , HOH A:2276	BINDING SITE FOR RESIDUE EDO A1352
8	AC8	SOFTWARE	ARG A:112 , TRP B:183 , HOH B:2155	BINDING SITE FOR RESIDUE CL B1351
9	AC9	SOFTWARE	ASN A:126 , TRP A:183 , HOH A:2137 , HOH A:2171 , ARG B:112	BINDING SITE FOR RESIDUE CL A1351

(no "SS Bond" information available for 5FJH)

(no "Cis Peptide Bond" information available for 5FJH)

(no "SAP(SNP)/Variant" information available for 5FJH)

(no "PROSITE Motif" information available for 5FJH)

(no "Exon" information available for 5FJH)

Asymmetric Unit

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Chain A from PDB  Type:PROTEIN  Length:338
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eee..hhhhhhhhhhhhhhhhhhhhhhh.eeee...........hhhhhh.ee...eeeeeeee..eeeeeeee...eehhhhhhhhhh.........hhhhhhhhhhhhh.....eeeeeee.................hhhhhhhhhhh.........eeeee....eeeee.hhhhheeeeeeeee..eeeeeehhhhhhhhhhhhhhhhhhhhhhh.hhhhhh.eeehhhhhhhh....eeeee....eeee....eeeeee...eeeeeeee.hhhhhhhhhhh.............hhhhhhhhh..hhhhhhh........... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fjh A  10 LNPSCKIMTFRPSMEEFREFNKYLAYMESKGAHRAGLAKVIPPKEWKPRQCYDDIDNLLIPAPIQQMVTGQSGLFTQYNIQKKAMTVKEFRQLANSGKYCTPRYLDYEDLERKYWKNLTFVAPIYGADINGSIYDEGVDEWNIARLNTVLDVVEEECGISIEGVNTPYLYFGMWKTTFAWHTEDMDLYSINYLHFGEPKSWYAIPPEHGKRLERLAQGFFPSSSQGCDAFLRHKMTLISPSVLKKYGIPFDKITQEAGEFMITFPYGYHAGFNHGFNCAESTNFATVRWIDYGKVAKLCTCRKDMVKISMDIFVRKFQPDRYQLWKQGKDIYTIDHTK 347
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339

Chain B from PDB  Type:PROTEIN  Length:338
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eee..hhhhhhhhhhhhhhhhhhhhhhh.eeee...........hhhhhh.ee...eeeeeeee..eeeeeeee...eehhhhhhhhhh.........hhhhhhhhhhhh......eeeeeee.................hhhhhhhhhhh.........eeeee....eeeee.hhhhheeeeeeeee..eeeeeehhhhhhhhhhhhhhhhhhhhhhh.hhhhhh.eeehhhhhhhh....eeeee....eeee....eeeeee...eeeeeeee...hhhhhhhhh.............hhhhhhhhh..hhhhhhh........... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fjh B  10 LNPSCKIMTFRPSMEEFREFNKYLAYMESKGAHRAGLAKVIPPKEWKPRQCYDDIDNLLIPAPIQQMVTGQSGLFTQYNIQKKAMTVKEFRQLANSGKYCTPRYLDYEDLERKYWKNLTFVAPIYGADINGSIYDEGVDEWNIARLNTVLDVVEEECGISIEGVNTPYLYFGMWKTTFAWHTEDMDLYSINYLHFGEPKSWYAIPPEHGKRLERLAQGFFPSSSQGCDAFLRHKMTLISPSVLKKYGIPFDKITQEAGEFMITFPYGYHAGFNHGFNCAESTNFATVRWIDYGKVAKLCTCRKDMVKISMDIFVRKFQPDRYQLWKQGKDIYTIDHTK 347
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

(no "SCOP Domain" information available for 5FJH)

(no "CATH Domain" information available for 5FJH)

(no "Pfam Domain" information available for 5FJH)

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	KDM4C_HUMAN \| Q9H3R0	:	2xdp 2xml 4xdo 4xdp 5fjk 5kr7

5fjk	CRYSTAL STRUCTURE OF HUMAN JMJD2C CATALYTIC DOMAIN IN COMPLEX 6-ETHYL-5-METHYL-7-OXO-4,7-DIHYDROPYRAZOLO( 1,5-A)PYRIMIDINE-3-CARBONITRILE

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