5EEK

Crystal structure of Danio rerio histone deacetylase 6 catalytic domain 2 in complex with trichostatin A

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000118	cellular_component	histone deacetylase complex
A	0004407	molecular_function	histone deacetylase activity
A	0006325	biological_process	chromatin organization
A	0016575	biological_process	histone deacetylation

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue ZN A 2001

Chain	Residue
A	ASP612
A	HIS614
A	ASP705
A	TSN2004

---

site_id	AC2
Number of Residues	5
Details	binding site for residue K A 2002

Chain	Residue
A	ASP610
A	ASP612
A	HIS614
A	SER633
A	LEU634

---

site_id	AC3
Number of Residues	6
Details	binding site for residue K A 2003

Chain	Residue
A	PHE623
A	ASP626
A	VAL629
A	TYR662
A	HOH2131
A	HOH2219

---

site_id	AC4
Number of Residues	14
Details	binding site for residue TSN A 2004

Chain	Residue
A	HIS463
A	PRO464
A	HIS573
A	HIS574
A	PHE583
A	ASP612
A	HIS614
A	PHE643
A	ASP705
A	LEU712
A	TYR745
A	ZN2001
A	GOL2038
A	HOH2309

---

site_id	AC5
Number of Residues	2
Details	binding site for residue IOD A 2005

Chain	Residue
A	GLY655
A	NH42031

---

site_id	AC6
Number of Residues	4
Details	binding site for residue IOD A 2006

Chain	Residue
A	LYS518
A	PRO519
A	ARG520
A	NH42030

---

site_id	AC7
Number of Residues	2
Details	binding site for residue IOD A 2007

Chain	Residue
A	TRP459
A	TRP459

---

site_id	AC8
Number of Residues	1
Details	binding site for residue IOD A 2010

Chain	Residue
A	GLY657

---

site_id	AC9
Number of Residues	3
Details	binding site for residue IOD A 2011

Chain	Residue
A	HIS724
A	HIS727
A	GLN728

---

site_id	AD1
Number of Residues	4
Details	binding site for residue IOD A 2012

Chain	Residue
A	ALA694
A	PRO695
A	ALA733
A	NH42032

---

site_id	AD2
Number of Residues	1
Details	binding site for residue IOD A 2013

Chain	Residue
A	ARG708

---

site_id	AD3
Number of Residues	3
Details	binding site for residue IOD A 2015

Chain	Residue
A	PHE643
A	HOH2198
A	HOH2389

---

site_id	AD4
Number of Residues	3
Details	binding site for residue IOD A 2017

Chain	Residue
A	SER778
A	HOH2422
A	HOH2424

---

site_id	AD5
Number of Residues	2
Details	binding site for residue IOD A 2018

Chain	Residue
A	HIS463
A	HOH2130

---

site_id	AD6
Number of Residues	1
Details	binding site for residue IOD A 2019

Chain	Residue
A	GLN450

---

site_id	AD7
Number of Residues	6
Details	binding site for residue IOD A 2020

Chain	Residue
A	GLU478
A	ARG481
A	LEU483
A	SER484
A	NH42033
A	HOH2435

---

site_id	AD8
Number of Residues	3
Details	binding site for residue IOD A 2022

Chain	Residue
A	ARG451
A	NH42028
A	HOH2316

---

site_id	AD9
Number of Residues	6
Details	binding site for residue IOD A 2026

Chain	Residue
A	SER513
A	ARG691
A	CL2029
A	HOH2234
A	HOH2269
A	HOH2280

---

site_id	AE1
Number of Residues	2
Details	binding site for residue IOD A 2027

Chain	Residue
A	LYS776
A	THR777

---

site_id	AE2
Number of Residues	2
Details	binding site for residue NH4 A 2028

Chain	Residue
A	ARG451
A	IOD2022

---

site_id	AE3
Number of Residues	3
Details	binding site for residue CL A 2029

Chain	Residue
A	LYS512
A	HIS516
A	IOD2026

---

site_id	AE4
Number of Residues	4
Details	binding site for residue NH4 A 2030

Chain	Residue
A	TRP459
A	LYS518
A	IOD2006
A	HOH2184

---

site_id	AE5
Number of Residues	5
Details	binding site for residue NH4 A 2031

Chain	Residue
A	GLN620
A	HIS621
A	GLU624
A	IOD2005
A	HOH2113

---

site_id	AE6
Number of Residues	2
Details	binding site for residue NH4 A 2032

Chain	Residue
A	ARG691
A	IOD2012

---

site_id	AE7
Number of Residues	4
Details	binding site for residue NH4 A 2033

Chain	Residue
A	ARG481
A	SER484
A	PRO792
A	IOD2020

---

site_id	AE8
Number of Residues	2
Details	binding site for residue NH4 A 2034

Chain	Residue
A	ASN784
A	IOD2035

---

site_id	AE9
Number of Residues	1
Details	binding site for residue IOD A 2035

Chain	Residue
A	NH42034

---

site_id	AF1
Number of Residues	2
Details	binding site for residue IOD A 2036

Chain	Residue
A	PRO774
A	LEU775

---

site_id	AF2
Number of Residues	2
Details	binding site for residue IOD A 2037

Chain	Residue
A	HIS487
A	GLN560

---

site_id	AF3
Number of Residues	6
Details	binding site for residue GOL A 2038

Chain	Residue
A	ARG601
A	ARG605
A	GLU696
A	TSN2004
A	HOH2318
A	HOH2327

---

site_id	AF4
Number of Residues	3
Details	binding site for residue EDO A 2039

Chain	Residue
A	TYR529
A	SER531
A	HOH2245

---

site_id	AF5
Number of Residues	8
Details	binding site for residue EDO A 2040

Chain	Residue
A	TYR448
A	ASP449
A	GLN450
A	PHE474
A	ARG488
A	HOH2101
A	HOH2106
A	HOH2360

---

site_id	AF6
Number of Residues	3
Details	binding site for residues IOD A 2008 and IOD A 2009

Chain	Residue
A	SER603
A	PRO711
A	HOH2433

---

site_id	AF7
Number of Residues	3
Details	binding site for residues IOD A 2023 and IOD A 2024

Chain	Residue
A	SER505
A	LYS506
A	HOH2400

---