3KMZ

Crystal structure of RARalpha ligand binding domain in complex with the inverse agonist BMS493 and a corepressor fragment

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003677	molecular_function	DNA binding
A	0004879	molecular_function	nuclear receptor activity
A	0005634	cellular_component	nucleus
A	0006355	biological_process	regulation of DNA-templated transcription
A	0048384	biological_process	retinoic acid receptor signaling pathway
B	0003677	molecular_function	DNA binding
B	0004879	molecular_function	nuclear receptor activity
B	0005634	cellular_component	nucleus
B	0006355	biological_process	regulation of DNA-templated transcription
B	0048384	biological_process	retinoic acid receptor signaling pathway

Functional Information from PDB Data

site_id	AC1
Number of Residues	15
Details	BINDING SITE FOR RESIDUE EQO B 1

Chain	Residue
B	HOH11
B	ARG276
B	PHE286
B	SER287
B	PHE302
C	LEU2051
C	HIS2054
B	PHE199
B	PHE228
B	SER232
B	THR233
B	CYS235
B	ILE236
B	LEU269
B	ILE273

---

site_id	AC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE GOL B 422

Chain	Residue
B	THR210
B	ASN211
B	ASN293
B	GLN296
B	HOH445

---

site_id	AC3
Number of Residues	4
Details	BINDING SITE FOR RESIDUE GOL B 4

Chain	Residue
B	THR210
B	ASN212
B	LEU224
B	LYS227

---

site_id	AC4
Number of Residues	7
Details	BINDING SITE FOR RESIDUE GOL B 5

Chain	Residue
B	ALA263
B	LEU266
B	ASP267
B	ARG385
B	SER388
B	HOH429
B	HOH437

---

site_id	AC5
Number of Residues	9
Details	BINDING SITE FOR RESIDUE GOL B 9

Chain	Residue
B	LEU319
B	GLU320
B	GLU325
B	VAL363
B	ARG366
B	ARG367
B	ARG370
B	MET373
B	MET377

---

site_id	AC6
Number of Residues	15
Details	BINDING SITE FOR RESIDUE EQO A 2

Chain	Residue
A	HOH20
A	PHE199
A	TRP225
A	PHE228
A	SER232
A	CYS235
A	ILE236
A	LEU269
A	ILE273
A	ARG276
A	PHE286
A	SER287
A	PHE302
D	LEU2051
D	HIS2054

---

site_id	AC7
Number of Residues	9
Details	BINDING SITE FOR RESIDUE GOL A 422

Chain	Residue
A	LEU319
A	GLU320
A	GLU325
A	VAL363
A	ARG366
A	ARG367
A	ARG370
A	MET373
A	MET377

---

site_id	AC8
Number of Residues	6
Details	BINDING SITE FOR RESIDUE GOL A 3

Chain	Residue
A	HOH40
A	LEU220
A	GLY301
A	ARG394
A	ILE396
A	THR397

---

site_id	AC9
Number of Residues	5
Details	BINDING SITE FOR RESIDUE GOL A 6

Chain	Residue
A	THR210
A	ASN211
A	SER214
A	HOH423
A	HOH469

---

site_id	BC1
Number of Residues	6
Details	BINDING SITE FOR RESIDUE GOL A 7

Chain	Residue
A	LYS360
A	LYS360
A	ARG364
A	PRO371
A	PHE374
A	PRO375

---

site_id	BC2
Number of Residues	8
Details	BINDING SITE FOR RESIDUE GOL A 8

Chain	Residue
A	HOH54
A	HOH88
A	ALA263
A	LEU266
A	ASP267
A	ARG385
A	SER388
A	ALA389

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	8
Details	Motif: {"description":"UBR5-degron","evidences":[{"source":"PubMed","id":"37478846","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	4
Details	Binding site: {"evidences":[{"source":"PDB","id":"3A9E","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	4
Details	Modified residue: {"description":"Phosphoserine; by PKA","evidences":[{"source":"PubMed","id":"20215566","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	4
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO)","evidences":[{"source":"PubMed","id":"19850744","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	6
Details	Region: {"description":"Required for interaction with RARA in the absence of its ligand","evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---