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Title :   CRYSTAL STRUCTURE OF HUMAN KDM4C CATALYTIC DOMAIN WITH OGA

Authors :   K. K. Swinger, P. A. Boriack-Sjodin

Date :   19 Dec 14 (Deposition) - 25 Mar 15 (Release) - 01 Jul 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.97

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

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

Reference :   T. J. Wigle, K. K. Swinger, J. E. Campbell, M. D. Scholle, J. Sherrill, E. A. Admirand, P. A. Boriack-Sjodin, K. W. Kuntz, R. Chesworth, M. P. Moyer, M. P. Scott, R. A. Copeland
A High-Throughput Mass Spectrometry Assay Coupled With Redo Activity Testing Reduces Artifacts And False Positives In Lysine Demethylase Screening.
J Biomol Screen V. 20 810 2015
PubMed-ID: 25755264 | Reference-DOI: 10.1177/1087057115575689

Molecule 1 - LYSINE-SPECIFIC DEMETHYLASE 4C
	Chains	:	A, B
	EC Number	:	1.14.11.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	CATALYTIC DOMAIN (UNP RESIDUES 10-347)
	Gene	:	KDM4C, GASC1, JHDM3C, JMJD2C, KIAA0780
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	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 (6, 10)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
2	FE	2	Ligand/Ion	FE (III) ION
3	OGA	2	Ligand/Ion	N-OXALYLGLYCINE
4	PG4	1	Ligand/Ion	TETRAETHYLENE GLYCOL
5	PGE	2	Ligand/Ion	TRIETHYLENE GLYCOL
6	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (3, 4)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
2	FE	-1	Ligand/Ion	FE (III) ION
3	OGA	1	Ligand/Ion	N-OXALYLGLYCINE
4	PG4	-1	Ligand/Ion	TETRAETHYLENE GLYCOL
5	PGE	2	Ligand/Ion	TRIETHYLENE GLYCOL
6	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
2	FE	-1	Ligand/Ion	FE (III) ION
3	OGA	1	Ligand/Ion	N-OXALYLGLYCINE
4	PG4	1	Ligand/Ion	TETRAETHYLENE GLYCOL
5	PGE	-1	Ligand/Ion	TRIETHYLENE GLYCOL
6	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:236 , HIS A:242 , CYS A:308 , CYS A:310	binding site for residue ZN A 401
2	AC2	SOFTWARE	HIS A:190 , GLU A:192 , HIS A:278 , OGA A:403 , HOH A:568	binding site for residue FE A 402
3	AC3	SOFTWARE	TYR A:134 , TYR A:179 , PHE A:187 , HIS A:190 , GLU A:192 , SER A:198 , ASN A:200 , LYS A:208 , HIS A:278 , FE A:402 , HOH A:568	binding site for residue OGA A 403
4	AC4	SOFTWARE	ASP A:63 , LEU A:67 , ILE A:142	binding site for residue PGE A 404
5	AC5	SOFTWARE	GLN A:90	binding site for residue PGE A 406
6	AC6	SOFTWARE	CYS B:236 , HIS B:242 , CYS B:308 , CYS B:310	binding site for residue ZN B 401
7	AC7	SOFTWARE	HIS B:190 , GLU B:192 , HIS B:278 , OGA B:403 , HOH B:543	binding site for residue FE B 402
8	AC8	SOFTWARE	TYR B:134 , HIS B:190 , GLU B:192 , SER B:198 , ASN B:200 , LYS B:208 , HIS B:278 , FE B:402 , HOH B:543	binding site for residue OGA B 403
9	AC9	SOFTWARE	ASP B:63 , LEU B:67 , SER B:141	binding site for residue PG4 B 404

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

(no "Cis Peptide Bond" information available for 4XDO)

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

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

(no "Exon" information available for 4XDO)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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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...hhhhhhhhh.............hhhhhhhhh..hhhhhhh........... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xdo 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.........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
                 4xdo 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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	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 '\|'

(no "SCOP Domain" information available for 4XDO)

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

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

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

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Ligands, Modified Residues, Ions (6, 10)

Sites (9, 9)

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