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Title :   CRYSTAL STRUCTURE OF HUMAN KDM4C CATALYTIC DOMAIN BOUND TO TRIS

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 :   2.07

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

Keywords :   Lysine-Specific Demethylase 4C (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 (7, 16)

No.	Name	Count	Type	Full Name
1	CL	6	Ligand/Ion	CHLORIDE ION
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	FE	2	Ligand/Ion	FE (III) ION
4	PG4	1	Ligand/Ion	TETRAETHYLENE GLYCOL
5	PGE	2	Ligand/Ion	TRIETHYLENE GLYCOL
6	TRS	2	Ligand/Ion	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
7	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (3, 4)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	FE	-1	Ligand/Ion	FE (III) ION
4	PG4	-1	Ligand/Ion	TETRAETHYLENE GLYCOL
5	PGE	2	Ligand/Ion	TRIETHYLENE GLYCOL
6	TRS	1	Ligand/Ion	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
7	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
3	FE	-1	Ligand/Ion	FE (III) ION
4	PG4	1	Ligand/Ion	TETRAETHYLENE GLYCOL
5	PGE	-1	Ligand/Ion	TRIETHYLENE GLYCOL
6	TRS	1	Ligand/Ion	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
7	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (16, 16)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	CYS A:236 , HIS A:242 , CYS A:308 , CYS A:310	binding site for residue ZN A 401
02	AC2	SOFTWARE	HIS A:190 , GLU A:192 , HIS A:278 , TRS A:403	binding site for residue FE A 402
03	AC3	SOFTWARE	HIS A:190 , GLU A:192 , SER A:198 , ASN A:200 , HIS A:278 , SER A:290 , FE A:402	binding site for residue TRS A 403
04	AC4	SOFTWARE	LEU A:67 , ASN A:139 , ILE A:142	binding site for residue PGE A 404
05	AC5	SOFTWARE	HOH A:501	binding site for residue EDO A 405
06	AC6	SOFTWARE	GLN A:90	binding site for residue PGE A 406
07	AC7	SOFTWARE	ARG A:324 , LYS A:325 , HOH A:583 , ARG B:112 , TYR B:113	binding site for residue CL A 407
08	AC8	SOFTWARE	ARG A:112 , PRO B:111 , ARG B:112	binding site for residue CL A 408
09	AC9	SOFTWARE	TRP A:183 , ARG B:112	binding site for residue CL A 409
10	AD1	SOFTWARE	VAL A:296 , HOH A:551 , HOH A:555	binding site for residue CL A 410
11	AD2	SOFTWARE	CYS B:236 , HIS B:242 , CYS B:308 , CYS B:310	binding site for residue ZN B 401
12	AD3	SOFTWARE	HIS B:190 , GLU B:192 , HIS B:278 , TRS B:403	binding site for residue FE B 402
13	AD4	SOFTWARE	HIS B:190 , GLU B:192 , SER B:198 , ASN B:200 , HIS B:278 , FE B:402	binding site for residue TRS B 403
14	AD5	SOFTWARE	LEU B:67 , HOH B:508 , HOH B:611	binding site for residue PG4 B 404
15	AD6	SOFTWARE	ARG A:112 , TYR A:113 , ARG B:324 , LYS B:325	binding site for residue CL B 405
16	AD7	SOFTWARE	ARG A:112 , ASN B:126 , TRP B:183 , HOH B:523	binding site for residue CL B 406

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

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

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

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

(no "Exon" information available for 4XDP)

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
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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...eehhhhhhhhh..........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
                 4xdp 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.hhhhhhhhh...............hhhhhhhhh..hhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xdp 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

Legend:		→ Mismatch	(orange background)
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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 4XDP)

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

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

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

Description

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Ligands, Modified Residues, Ions (7, 16)

Sites (16, 16)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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