3C0Z - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF CATALYTIC DOMAIN OF HUMAN HISTONE DEACETYLASE HDAC7 IN COMPLEX WITH SAHA

Authors :   J. Min, A. Schuetz, P. Loppnau, J. Weigelt, M. Sundstrom, C. H. Arrowsmith, A. M. Edwards, A. Bochkarev, A. N. Plotnikov, Structural Genomics Consortium (Sgc)

Date :   21 Jan 08 (Deposition) - 19 Feb 08 (Release) - 27 Oct 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

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

Keywords :   Hdac, Structural Genomics, Structural Genomics Consortium, Sgc, Alternative Splicing, Chromatin Regulator, Cytoplasm, Hydrolase, Nucleus, Phosphoprotein, Polymorphism, Repressor, Transcription, Transcription Regulation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Schuetz, J. Min, A. Allali-Hassani, M. Schapira, M. Shuen, P. Loppnau, R. Mazitschek, N. P. Kwiatkowski, T. A. Lewis, R. L. Maglathin, T. H. Mclean, A. Bochkarev, A. N. Plotnikov, M. Vedadi, C. H. Arrowsmith
Human Hdac7 Harbors A Class Iia Histone Deacetylase-Specific Zinc Binding Motif And Cryptic Deacetylase Activity.
J. Biol. Chem. V. 283 11355 2008
PubMed-ID: 18285338 | Reference-DOI: 10.1074/JBC.M707362200
(for further references see the PDB file header)

Molecule 1 - HISTONE DEACETYLASE 7A
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET28A-MHL
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	HDAC7A, HDAC7
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	HD7A, HDAC7

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 15)

No.	Name	Count	Type	Full Name
1	K	6	Ligand/Ion	POTASSIUM ION
2	SHH	3	Ligand/Ion	OCTANEDIOIC ACID HYDROXYAMIDE PHENYLAMIDE
3	ZN	6	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	K	-1	Ligand/Ion	POTASSIUM ION
2	SHH	1	Ligand/Ion	OCTANEDIOIC ACID HYDROXYAMIDE PHENYLAMIDE
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	K	-1	Ligand/Ion	POTASSIUM ION
2	SHH	1	Ligand/Ion	OCTANEDIOIC ACID HYDROXYAMIDE PHENYLAMIDE
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	K	-1	Ligand/Ion	POTASSIUM ION
2	SHH	1	Ligand/Ion	OCTANEDIOIC ACID HYDROXYAMIDE PHENYLAMIDE
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (15, 15)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	SHH A:301 , ASP A:707 , HIS A:709 , ASP A:801	BINDING SITE FOR RESIDUE ZN A 101
02	AC2	SOFTWARE	CYS A:533 , CYS A:535 , HIS A:541 , CYS A:618	BINDING SITE FOR RESIDUE ZN A 102
03	AC3	SOFTWARE	ASP A:705 , ASP A:707 , HIS A:709 , SER A:728 , LEU A:729	BINDING SITE FOR RESIDUE K A 201
04	AC4	SOFTWARE	PHE A:718 , ASP A:721 , VAL A:724 , PHE A:755 , HOH A:908 , HOH A:915	BINDING SITE FOR RESIDUE K A 202
05	AC5	SOFTWARE	SHH B:301 , ASP B:707 , HIS B:709 , ASP B:801	BINDING SITE FOR RESIDUE ZN B 101
06	AC6	SOFTWARE	CYS B:533 , CYS B:535 , HIS B:541 , CYS B:618	BINDING SITE FOR RESIDUE ZN B 102
07	AC7	SOFTWARE	ASP B:705 , ASP B:707 , HIS B:709 , SER B:728 , LEU B:729	BINDING SITE FOR RESIDUE K B 201
08	AC8	SOFTWARE	PHE B:718 , ASP B:721 , VAL B:724 , HOH B:906 , HOH B:907	BINDING SITE FOR RESIDUE K B 202
09	AC9	SOFTWARE	SHH C:301 , ASP C:707 , HIS C:709 , ASP C:801	BINDING SITE FOR RESIDUE ZN C 101
10	BC1	SOFTWARE	CYS C:533 , CYS C:535 , HIS C:541 , CYS C:618	BINDING SITE FOR RESIDUE ZN C 102
11	BC2	SOFTWARE	ASP C:705 , ASP C:707 , HIS C:709 , SER C:728 , LEU C:729	BINDING SITE FOR RESIDUE K C 201
12	BC3	SOFTWARE	PHE C:718 , ASP C:721 , VAL C:724 , PHE C:755 , HOH C:905 , HOH C:913	BINDING SITE FOR RESIDUE K C 202
13	BC4	SOFTWARE	ZN A:101 , HIS A:669 , HIS A:670 , GLY A:678 , ASP A:707 , HIS A:709 , PHE A:738 , ASP A:801 , HOH A:1010	BINDING SITE FOR RESIDUE SHH A 301
14	BC5	SOFTWARE	ZN B:101 , HIS B:669 , HIS B:670 , GLY B:678 , PHE B:679 , ASP B:707 , HIS B:709 , ASP B:801 , HOH B:986	BINDING SITE FOR RESIDUE SHH B 301
15	BC6	SOFTWARE	ZN C:101 , HIS C:669 , HIS C:670 , PHE C:679 , ASP C:707 , HIS C:709 , PHE C:738 , ASP C:801 , HOH C:966	BINDING SITE FOR RESIDUE SHH C 301

(no "SS Bond" information available for 3C0Z)

Asymmetric Unit

No.	Residues
1	Pro A:593	-	Leu A:594
2	Arg A:665	-	Pro A:666
3	Phe A:738	-	Pro A:739
4	Asp A:766	-	Pro A:767
5	Arg B:665	-	Pro B:666
6	Phe B:738	-	Pro B:739
7	Asp B:766	-	Pro B:767
8	Ala B:808	-	Pro B:809
9	Asn C:592	-	Pro C:593
10	Arg C:665	-	Pro C:666
11	Phe C:738	-	Pro C:739
12	Asp C:766	-	Pro C:767
13	Ala C:808	-	Pro C:809

(no "SAP(SNP)/Variant" information available for 3C0Z)

(no "PROSITE Motif" information available for 3C0Z)

(no "Exon" information available for 3C0Z)

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:383
 aligned with HDAC7_HUMAN | Q8WUI4 from UniProtKB/Swiss-Prot  Length:952

    Alignment length:386
                                   524       534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854       864       874       884       894      
          HDAC7_HUMAN   515 TLPFTTGLIYDSVMLKHQCSCGDNSRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKASLEELQSVHSERHVLLYGTNPLSRLKLDNGKLAGLLAQRMFVMLPCGGVGVDTDTIWNELHSSNAARWAAGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFPGSGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLSEEGWKQKPNLNAIRSLEAVIRVHSKYWGCMQR 900
               SCOP domains d3c0za_ A: Histone deacetylase 7, HDAC7                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains 3c0zA00 A:515-900  [code=3.40.800.20, no name defined]                                                                                                                                                                                                                                                                                                                                             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee.hhhhhhh.....hhhhh...hhhhhhhhhhhhhh.hhhhheee.....hhhhhh...hhhhhhhhhh........hhhhhhhhhhh---...................hhhhhhhhhhhhhhhhhhhhhh....eeee....................hhhhhhhhhhhhhh....eeeee.....hhhhhhhhh....eeeeeeee.................hhhhh..eeeeee........hhhhhhhhhhhhhhhhhhhhh..eeeeee........hhhhh....hhhhhhhhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhhhhh...hhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3c0z A 515 TLPFTTGLIYDSVMLKHQCSCGDNSRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKASLEELQSVHSERHVLLYGTNPLSRLKLDNGKLAGLLAQ---VMLPCGGVGVDTDTIWNELHSSNAARWAAGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFPGSGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLSEEGWKQKPNLNAIRSLEAVIRVHSKYWGCMQR 900
                                   524       534       544       554       564       574       584       594       604     | 614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854       864       874       884       894      
                                                                                                                         610 614

Chain B from PDB  Type:PROTEIN  Length:368
 aligned with HDAC7_HUMAN | Q8WUI4 from UniProtKB/Swiss-Prot  Length:952

    Alignment length:386
                                   525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745       755       765       775       785       795       805       815       825       835       845       855       865       875       885       895      
          HDAC7_HUMAN   516 LPFTTGLIYDSVMLKHQCSCGDNSRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKASLEELQSVHSERHVLLYGTNPLSRLKLDNGKLAGLLAQRMFVMLPCGGVGVDTDTIWNELHSSNAARWAAGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFPGSGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLSEEGWKQKPNLNAIRSLEAVIRVHSKYWGCMQRL 901
               SCOP domains d3c0zb_ B: Histone deacetylase 7, HDAC7                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains 3c0zB00 B:516-901  [code=3.40.800.20, no name defined]                                                                                                                                                                                                                                                                                                                                             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee.hhhhhhh.............hhhhhhhhhhhhhh.hhhhheee.....hhhhhhh..hhhhhhhhhh....------------------...................hhhhhhhhhhhhhhhhhhhhhh....eeee....................hhhhhhhhhhhhh.....eeeee.....hhhhhhhhh....eeeeeeee.................hhhhh..eeeeee........hhhhhhhhhhhhhhhhhhhhh..eeeeee.................hhhhhhhhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3c0z B 516 LPFTTGLIYDSVMLKHQCSCGDNSRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKASLEELQSVHSERHVLLYGTNPLS------------------VMLPCGGVGVDTDTIWNELHSSNAARWAAGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFPGSGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLSEEGWKQKPNLNAIRSLEAVIRVHSKYWGCMQRL 901
                                   525       535       545       555       565       575       585       595         -       615       625       635       645       655       665       675       685       695       705       715       725       735       745       755       765       775       785       795       805       815       825       835       845       855       865       875       885       895      
                                                                                                         595                614

Chain C from PDB  Type:PROTEIN  Length:359
 aligned with HDAC7_HUMAN | Q8WUI4 from UniProtKB/Swiss-Prot  Length:952

    Alignment length:381
                                   528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898 
          HDAC7_HUMAN   519 TTGLIYDSVMLKHQCSCGDNSRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKASLEELQSVHSERHVLLYGTNPLSRLKLDNGKLAGLLAQRMFVMLPCGGVGVDTDTIWNELHSSNAARWAAGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFPGSGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLSEEGWKQKPNLNAIRSLEAVIRVHSKYWGCMQ 899
               SCOP domains d3c0zc_ C: Histone deacetylase 7, HDAC7                                                                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains 3c0zC00 C:519-899  [code=3.40.800.20, no name defined]                                                                                                                                                                                                                                                                                                                                        CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.hhhhhhh.............hhhhhhhhhhhhhh.hhhhheee.....hhhhhhh..hhhhhhhhhh..----------------------.................hhhhhhhhhhhhhhhhhhhhhh....eeee....................hhhhhhhhhhhhh.....eeeee.....hhhhhhhhh....eeeeeeee.hhhh............hhhhh..eeeeee........hhhhhhhhhhhhhhhhhhhhh..eeeeee.................hhhhhhhhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhhhh....hhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3c0z C 519 TTGLIYDSVMLKHQCSCGDNSRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKASLEELQSVHSERHVLLYGTNP----------------------LPCGGVGVDTDTIWNELHSSNAARWAAGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFPGSGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLSEEGWKQKPNLNAIRSLEAVIRVHSKYWGCMQ 899
                                   528       538       548       558       568       578       588    |    -         -       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898 
                                                                                                    593                    616

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) (23833)

Fold: Arginase/deacetylase (138)

Superfamily: Arginase/deacetylase (138)

Family: Histone deacetylase, HDAC (28)

Protein domain: Histone deacetylase 7, HDAC7 (5)

Human (Homo sapiens) [TaxId: 9606] (5)

1a	d3c0za_	A:
1b	d3c0zb_	B:
1c	d3c0zc_	C:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Arginase; Chain A (84)

Homologous Superfamily: [code=3.40.800.20, no name defined] (21)

Human (Homo sapiens) (17)

1a	3c0zC00	C:519-899
1b	3c0zB00	B:516-901
1c	3c0zA00	A:515-900

(no "Pfam Domain" information available for 3C0Z)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (HDAC7_HUMAN | Q8WUI4)

molecular function
	GO:0071889	14-3-3 protein binding	Interacting selectively and non-covalently with a 14-3-3 protein. A 14-3-3 protein is any of a large family of approximately 30kDa acidic proteins which exist primarily as homo- and heterodimers within all eukaryotic cells, and have been implicated in the modulation of distinct biological processes by binding to specific phosphorylated sites on diverse target proteins, thereby forcing conformational changes or influencing interactions between their targets and other molecules. Each 14-3-3 protein sequence can be roughly divided into three sections: a divergent amino terminus, the conserved core region and a divergent carboxyl terminus. The conserved middle core region of the 14-3-3s encodes an amphipathic groove that forms the main functional domain, a cradle for interacting with client proteins.
	GO:0032041	NAD-dependent histone deacetylase activity (H3-K14 specific)	Catalysis of the reaction: histone H3 N6-acetyl-L-lysine (position 14) + H2O = histone H3 L-lysine (position 14) + acetate. This reaction requires the presence of NAD, and represents the removal of an acetyl group from lysine at position 14 of the histone H3 protein.
	GO:0019789	SUMO transferase activity	Catalysis of the transfer of SUMO from one protein to another via the reaction X-SUMO + Y --> Y-SUMO + X, where both X-SUMO and Y-SUMO are covalent linkages.
	GO:0033613	activating transcription factor binding	Interacting selectively and non-covalently with an activating transcription factor, any protein whose activity is required to initiate or upregulate transcription.
	GO:0003682	chromatin binding	Interacting selectively and non-covalently with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.
	GO:0004407	histone deacetylase activity	Catalysis of the reaction: histone N6-acetyl-L-lysine + H2O = histone L-lysine + acetate. This reaction represents the removal of an acetyl group from a histone, a class of proteins complexed to DNA in chromatin and chromosomes.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0005080	protein kinase C binding	Interacting selectively and non-covalently with protein kinase C.
	GO:0019901	protein kinase binding	Interacting selectively and non-covalently with a protein kinase, any enzyme that catalyzes the transfer of a phosphate group, usually from ATP, to a protein substrate.
	GO:0070491	repressing transcription factor binding	Interacting selectively and non-covalently with a transcription repressor, any protein whose activity is required to prevent or downregulate transcription.
	GO:0003714	transcription corepressor activity	Interacting selectively and non-covalently with a repressing transcription factor and also with the basal transcription machinery in order to stop, prevent, or reduce the frequency, rate or extent of transcription. Cofactors generally do not bind the template nucleic acid, but rather mediate protein-protein interactions between repressive transcription factors and the basal transcription machinery.
biological process
	GO:0007043	cell-cell junction assembly	The aggregation, arrangement and bonding together of a set of components to form a junction between cells.
	GO:0071260	cellular response to mechanical stimulus	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a mechanical stimulus.
	GO:0070932	histone H3 deacetylation	The modification of histone H3 by the removal of one or more acetyl groups.
	GO:0016575	histone deacetylation	The modification of histones by removal of acetyl groups.
	GO:1901223	negative regulation of NIK/NF-kappaB signaling	Any process that stops, prevents or reduces the frequency, rate or extent of NIK/NF-kappaB signaling.
	GO:0032703	negative regulation of interleukin-2 production	Any process that stops, prevents, or reduces the frequency, rate, or extent of interleukin-2 production.
	GO:1901215	negative regulation of neuron death	Any process that stops, prevents or reduces the frequency, rate or extent of neuron death.
	GO:0045668	negative regulation of osteoblast differentiation	Any process that stops, prevents, or reduces the frequency, rate or extent of osteoblast differentiation.
	GO:0000122	negative regulation of transcription from RNA polymerase II promoter	Any process that stops, prevents, or reduces the frequency, rate or extent of transcription from an RNA polymerase II promoter.
	GO:0045892	negative regulation of transcription, DNA-templated	Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0051402	neuron apoptotic process	Any apoptotic process in a neuron, the basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system.
	GO:0030182	neuron differentiation	The process in which a relatively unspecialized cell acquires specialized features of a neuron.
	GO:0090050	positive regulation of cell migration involved in sprouting angiogenesis	Any process that increases the frequency, rate or extent of cell migration involved in sprouting angiogenesis. Cell migration involved in sprouting angiogenesis is the orderly movement of endothelial cells into the extracellular matrix in order to form new blood vessels contributing to the process of sprouting angiogenesis.
	GO:0016925	protein sumoylation	The process in which a SUMO protein (small ubiquitin-related modifier) is conjugated to a target protein via an isopeptide bond between the carboxyl terminus of SUMO with an epsilon-amino group of a lysine residue of the target protein.
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.
	GO:0001570	vasculogenesis	The differentiation of endothelial cells from progenitor cells during blood vessel development, and the de novo formation of blood vessels and tubes.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0000118	histone deacetylase complex	A protein complex that possesses histone deacetylase activity.
	GO:0005654	nucleoplasm	That part of the nuclear content other than the chromosomes or the nucleolus.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
		K	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		SHH	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		ZN	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
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		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]
		AC7	[ RasMol ]	+environment [ RasMol ]
		AC8	[ RasMol ]	+environment [ RasMol ]
		AC9	[ RasMol ]	+environment [ RasMol ]
		BC1	[ RasMol ]	+environment [ RasMol ]
		BC2	[ RasMol ]	+environment [ RasMol ]
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		BC5	[ RasMol ]	+environment [ RasMol ]
		BC6	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Ala B:808 - Pro B:809	[ RasMol ]
		Ala C:808 - Pro C:809	[ RasMol ]
		Arg A:665 - Pro A:666	[ RasMol ]
		Arg B:665 - Pro B:666	[ RasMol ]
		Arg C:665 - Pro C:666	[ RasMol ]
		Asn C:592 - Pro C:593	[ RasMol ]
		Asp A:766 - Pro A:767	[ RasMol ]
		Asp B:766 - Pro B:767	[ RasMol ]
		Asp C:766 - Pro C:767	[ RasMol ]
		Phe A:738 - Pro A:739	[ RasMol ]
		Phe B:738 - Pro B:739	[ RasMol ]
		Phe C:738 - Pro C:739	[ RasMol ]
		Pro A:593 - Leu A:594	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]
		Biological Unit 3	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format \| Biol. Unit 3 PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

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	3c0z
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	HDAC7_HUMAN \| Q8WUI4
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UniProtKB/Swiss-Prot
	HDAC7_HUMAN \| Q8WUI4	:	3c0y 3c10 3znr 3zns

2nvr	CRYSTAL STRUCTURE OF CATALYTIC DOMAIN OF HUMAN HISTONE DEACETYLASE HDAC7
3c0y	CRYSTAL STRUCTURE OF CATALYTIC DOMAIN OF HUMAN HISTONE DEACETYLASE HDAC7
3c10	CRYSTAL STRUCTURE OF CATALYTIC DOMAIN OF HUMAN HISTONE DEACETYLASE HDAC7 IN COMPLEX WITH TRICHOSTATIN A (TSA)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 15)

Sites (15, 15)

SS Bonds (0, 0)

Cis Peptide Bonds (13, 13)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 3)

CATH Domains (1, 3)

Pfam Domains (0, 0)

Gene Ontology (34, 34)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File