2BCG

Structure of doubly prenylated Ypt1:GDI complex

Functional Information from GO Data

Chain	GOid	namespace	contents
G	0005092	molecular_function	GDP-dissociation inhibitor activity
G	0005093	molecular_function	Rab GDP-dissociation inhibitor activity
G	0005096	molecular_function	GTPase activator activity
G	0005515	molecular_function	protein binding
G	0005575	cellular_component	cellular_component
G	0005737	cellular_component	cytoplasm
G	0007264	biological_process	small GTPase-mediated signal transduction
G	0015031	biological_process	protein transport
G	0016192	biological_process	vesicle-mediated transport
Y	0000045	biological_process	autophagosome assembly
Y	0000139	cellular_component	Golgi membrane
Y	0000149	molecular_function	SNARE binding
Y	0000407	cellular_component	phagophore assembly site
Y	0003924	molecular_function	GTPase activity
Y	0005515	molecular_function	protein binding
Y	0005525	molecular_function	GTP binding
Y	0005737	cellular_component	cytoplasm
Y	0005739	cellular_component	mitochondrion
Y	0005783	cellular_component	endoplasmic reticulum
Y	0005789	cellular_component	endoplasmic reticulum membrane
Y	0005794	cellular_component	Golgi apparatus
Y	0005795	cellular_component	Golgi stack
Y	0005801	cellular_component	cis-Golgi network
Y	0005829	cellular_component	cytosol
Y	0006886	biological_process	intracellular protein transport
Y	0006888	biological_process	endoplasmic reticulum to Golgi vesicle-mediated transport
Y	0006890	biological_process	retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum
Y	0006914	biological_process	autophagy
Y	0012505	cellular_component	endomembrane system
Y	0015031	biological_process	protein transport
Y	0016020	cellular_component	membrane
Y	0016192	biological_process	vesicle-mediated transport
Y	0016236	biological_process	macroautophagy
Y	0031410	cellular_component	cytoplasmic vesicle
Y	0032258	biological_process	cytoplasm to vacuole targeting by the Cvt pathway
Y	0032456	biological_process	endocytic recycling
Y	0034045	cellular_component	phagophore assembly site membrane
Y	0034497	biological_process	protein localization to phagophore assembly site
Y	0034498	biological_process	early endosome to Golgi transport
Y	0035493	biological_process	SNARE complex assembly
Y	0035494	biological_process	SNARE complex disassembly
Y	0048194	biological_process	Golgi vesicle budding
Y	0048211	biological_process	Golgi vesicle docking
Y	0061709	biological_process	reticulophagy
Y	0090114	biological_process	COPII-coated vesicle budding
Y	1900101	biological_process	regulation of endoplasmic reticulum unfolded protein response
Y	1990261	biological_process	pre-mRNA catabolic process

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MG Y 1208

Chain	Residue
Y	SER22
Y	GDP1207
Y	HOH3243
Y	HOH3244
Y	HOH3245
Y	HOH3246

---

site_id	AC2
Number of Residues	27
Details	BINDING SITE FOR RESIDUE GDP Y 1207

Chain	Residue
Y	LYS21
Y	SER22
Y	CYS23
Y	TYR33
Y	THR34
Y	ASP36
Y	TYR37
Y	ASN121
Y	LYS122
Y	ASP124
Y	LEU125
Y	SER151
Y	ALA152
Y	LEU153
Y	MG1208
Y	HOH3002
Y	HOH3004
Y	HOH3024
Y	HOH3043
Y	HOH3054
Y	HOH3057
Y	HOH3243
Y	HOH3244
Y	HOH3246
Y	GLY18
Y	VAL19
Y	GLY20

---

site_id	AC3
Number of Residues	7
Details	BINDING SITE FOR RESIDUE GER G 4000

Chain	Residue
G	PRO128
G	ALA134
G	LYS145
G	PHE192
G	CYS221
G	VAL224
G	GER2000

---

site_id	AC4
Number of Residues	8
Details	BINDING SITE FOR RESIDUE GER G 2000

Chain	Residue
G	ALA134
G	LYS145
G	MET148
G	LEU152
G	ILE155
G	CYS221
G	ASP371
G	GER4000

---

site_id	AC5
Number of Residues	10
Details	BINDING SITE FOR RESIDUE TRS Y 3000

Chain	Residue
G	VAL435
G	THR436
G	GLY437
G	HOH4132
G	HOH4259
G	HOH4281
Y	ASP141
Y	HOH3267
Y	HOH3269
Y	HOH3270

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	BINDING: BINDING => ECO:0000269|PubMed:14576435, ECO:0000269|PubMed:16034420, ECO:0000269|PubMed:16395334, ECO:0007744|PDB:1UKV, ECO:0007744|PDB:1YZN, ECO:0007744|PDB:2BCG

Chain	Residue	Details
Y	SER17
Y	TYR33
Y	ASN121
Y	ALA152

---

site_id	SWS_FT_FI2
Number of Residues	1
Details	BINDING: BINDING => ECO:0000269|PubMed:16034420, ECO:0007744|PDB:1YZN

Chain	Residue	Details
Y	GLY66

---

site_id	SWS_FT_FI3
Number of Residues	1
Details	MOD_RES: N-acetylmethionine => ECO:0000269|Ref.5

Chain	Residue	Details
Y	MET1

---

site_id	SWS_FT_FI4
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0007744|PubMed:19779198

Chain	Residue	Details
Y	SER172

---

site_id	SWS_FT_FI5
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0007744|PubMed:18407956

Chain	Residue	Details
Y	SER174

---

site_id	SWS_FT_FI6
Number of Residues	2
Details	LIPID: S-palmitoyl cysteine => ECO:0000255

Chain	Residue	Details
Y	CYS23
Y	CYS123

---

site_id	SWS_FT_FI7
Number of Residues	1
Details	LIPID: S-geranylgeranyl cysteine => ECO:0000269|PubMed:10071213, ECO:0000269|PubMed:16395334

Chain	Residue	Details
Y	CYS205

---

site_id	SWS_FT_FI8
Number of Residues	1
Details	LIPID: S-geranylgeranyl cysteine => ECO:0000269|PubMed:10071213, ECO:0000269|PubMed:14576435, ECO:0000269|PubMed:16395334, ECO:0007744|PDB:1UKV

Chain	Residue	Details
Y	CYS206

---

site_id	SWS_FT_FI9
Number of Residues	2
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0007744|PubMed:22106047

Chain	Residue	Details
Y	LYS144

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