1VG8

GPPNHP-Bound Rab7

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000045	biological_process	autophagosome assembly
A	0000166	molecular_function	nucleotide binding
A	0000421	cellular_component	autophagosome membrane
A	0003924	molecular_function	GTPase activity
A	0003925	molecular_function	G protein activity
A	0005515	molecular_function	protein binding
A	0005525	molecular_function	GTP binding
A	0005739	cellular_component	mitochondrion
A	0005764	cellular_component	lysosome
A	0005765	cellular_component	lysosomal membrane
A	0005770	cellular_component	late endosome
A	0005811	cellular_component	lipid droplet
A	0005829	cellular_component	cytosol
A	0006622	biological_process	protein targeting to lysosome
A	0006629	biological_process	lipid metabolic process
A	0006914	biological_process	autophagy
A	0007174	biological_process	epidermal growth factor catabolic process
A	0008333	biological_process	endosome to lysosome transport
A	0009617	biological_process	response to bacterium
A	0010008	cellular_component	endosome membrane
A	0015031	biological_process	protein transport
A	0016042	biological_process	lipid catabolic process
A	0016787	molecular_function	hydrolase activity
A	0019003	molecular_function	GDP binding
A	0019076	biological_process	viral release from host cell
A	0022615	biological_process	protein to membrane docking
A	0030670	cellular_component	phagocytic vesicle membrane
A	0030672	cellular_component	synaptic vesicle membrane
A	0030904	cellular_component	retromer complex
A	0031267	molecular_function	small GTPase binding
A	0031410	cellular_component	cytoplasmic vesicle
A	0031902	cellular_component	late endosome membrane
A	0031966	cellular_component	mitochondrial membrane
A	0032935	molecular_function	sterol sensor activity
A	0032991	cellular_component	protein-containing complex
A	0033162	cellular_component	melanosome membrane
A	0034045	cellular_component	phagophore assembly site membrane
A	0036466	biological_process	synaptic vesicle recycling via endosome
A	0042147	biological_process	retrograde transport, endosome to Golgi
A	0042632	biological_process	cholesterol homeostasis
A	0043195	cellular_component	terminal bouton
A	0045022	biological_process	early endosome to late endosome transport
A	0045335	cellular_component	phagocytic vesicle
A	0045453	biological_process	bone resorption
A	0045732	biological_process	positive regulation of protein catabolic process
A	0046872	molecular_function	metal ion binding
A	0048524	biological_process	positive regulation of viral process
A	0061462	biological_process	protein localization to lysosome
A	0061724	biological_process	lipophagy
A	0070382	cellular_component	exocytic vesicle
A	0090120	biological_process	lysosome to ER cholesterol transport
A	0090383	biological_process	phagosome acidification
A	0090385	biological_process	phagosome-lysosome fusion
A	0097208	cellular_component	alveolar lamellar body
A	0098588	cellular_component	bounding membrane of organelle
A	0098830	cellular_component	presynaptic endosome
A	0099638	biological_process	endosome to plasma membrane protein transport
A	1903542	biological_process	negative regulation of exosomal secretion
A	1903543	biological_process	positive regulation of exosomal secretion
A	1905394	molecular_function	retromer complex binding
B	0000045	biological_process	autophagosome assembly
B	0000166	molecular_function	nucleotide binding
B	0000421	cellular_component	autophagosome membrane
B	0003924	molecular_function	GTPase activity
B	0003925	molecular_function	G protein activity
B	0005515	molecular_function	protein binding
B	0005525	molecular_function	GTP binding
B	0005739	cellular_component	mitochondrion
B	0005764	cellular_component	lysosome
B	0005765	cellular_component	lysosomal membrane
B	0005770	cellular_component	late endosome
B	0005811	cellular_component	lipid droplet
B	0005829	cellular_component	cytosol
B	0006622	biological_process	protein targeting to lysosome
B	0006629	biological_process	lipid metabolic process
B	0006914	biological_process	autophagy
B	0007174	biological_process	epidermal growth factor catabolic process
B	0008333	biological_process	endosome to lysosome transport
B	0009617	biological_process	response to bacterium
B	0010008	cellular_component	endosome membrane
B	0015031	biological_process	protein transport
B	0016042	biological_process	lipid catabolic process
B	0016787	molecular_function	hydrolase activity
B	0019003	molecular_function	GDP binding
B	0019076	biological_process	viral release from host cell
B	0022615	biological_process	protein to membrane docking
B	0030670	cellular_component	phagocytic vesicle membrane
B	0030672	cellular_component	synaptic vesicle membrane
B	0030904	cellular_component	retromer complex
B	0031267	molecular_function	small GTPase binding
B	0031410	cellular_component	cytoplasmic vesicle
B	0031902	cellular_component	late endosome membrane
B	0031966	cellular_component	mitochondrial membrane
B	0032935	molecular_function	sterol sensor activity
B	0032991	cellular_component	protein-containing complex
B	0033162	cellular_component	melanosome membrane
B	0034045	cellular_component	phagophore assembly site membrane
B	0036466	biological_process	synaptic vesicle recycling via endosome
B	0042147	biological_process	retrograde transport, endosome to Golgi
B	0042632	biological_process	cholesterol homeostasis
B	0043195	cellular_component	terminal bouton
B	0045022	biological_process	early endosome to late endosome transport
B	0045335	cellular_component	phagocytic vesicle
B	0045453	biological_process	bone resorption
B	0045732	biological_process	positive regulation of protein catabolic process
B	0046872	molecular_function	metal ion binding
B	0048524	biological_process	positive regulation of viral process
B	0061462	biological_process	protein localization to lysosome
B	0061724	biological_process	lipophagy
B	0070382	cellular_component	exocytic vesicle
B	0090120	biological_process	lysosome to ER cholesterol transport
B	0090383	biological_process	phagosome acidification
B	0090385	biological_process	phagosome-lysosome fusion
B	0097208	cellular_component	alveolar lamellar body
B	0098588	cellular_component	bounding membrane of organelle
B	0098830	cellular_component	presynaptic endosome
B	0099638	biological_process	endosome to plasma membrane protein transport
B	1903542	biological_process	negative regulation of exosomal secretion
B	1903543	biological_process	positive regulation of exosomal secretion
B	1905394	molecular_function	retromer complex binding
C	0000045	biological_process	autophagosome assembly
C	0000166	molecular_function	nucleotide binding
C	0000421	cellular_component	autophagosome membrane
C	0003924	molecular_function	GTPase activity
C	0003925	molecular_function	G protein activity
C	0005515	molecular_function	protein binding
C	0005525	molecular_function	GTP binding
C	0005739	cellular_component	mitochondrion
C	0005764	cellular_component	lysosome
C	0005765	cellular_component	lysosomal membrane
C	0005770	cellular_component	late endosome
C	0005811	cellular_component	lipid droplet
C	0005829	cellular_component	cytosol
C	0006622	biological_process	protein targeting to lysosome
C	0006629	biological_process	lipid metabolic process
C	0006914	biological_process	autophagy
C	0007174	biological_process	epidermal growth factor catabolic process
C	0008333	biological_process	endosome to lysosome transport
C	0009617	biological_process	response to bacterium
C	0010008	cellular_component	endosome membrane
C	0015031	biological_process	protein transport
C	0016042	biological_process	lipid catabolic process
C	0016787	molecular_function	hydrolase activity
C	0019003	molecular_function	GDP binding
C	0019076	biological_process	viral release from host cell
C	0022615	biological_process	protein to membrane docking
C	0030670	cellular_component	phagocytic vesicle membrane
C	0030672	cellular_component	synaptic vesicle membrane
C	0030904	cellular_component	retromer complex
C	0031267	molecular_function	small GTPase binding
C	0031410	cellular_component	cytoplasmic vesicle
C	0031902	cellular_component	late endosome membrane
C	0031966	cellular_component	mitochondrial membrane
C	0032935	molecular_function	sterol sensor activity
C	0032991	cellular_component	protein-containing complex
C	0033162	cellular_component	melanosome membrane
C	0034045	cellular_component	phagophore assembly site membrane
C	0036466	biological_process	synaptic vesicle recycling via endosome
C	0042147	biological_process	retrograde transport, endosome to Golgi
C	0042632	biological_process	cholesterol homeostasis
C	0043195	cellular_component	terminal bouton
C	0045022	biological_process	early endosome to late endosome transport
C	0045335	cellular_component	phagocytic vesicle
C	0045453	biological_process	bone resorption
C	0045732	biological_process	positive regulation of protein catabolic process
C	0046872	molecular_function	metal ion binding
C	0048524	biological_process	positive regulation of viral process
C	0061462	biological_process	protein localization to lysosome
C	0061724	biological_process	lipophagy
C	0070382	cellular_component	exocytic vesicle
C	0090120	biological_process	lysosome to ER cholesterol transport
C	0090383	biological_process	phagosome acidification
C	0090385	biological_process	phagosome-lysosome fusion
C	0097208	cellular_component	alveolar lamellar body
C	0098588	cellular_component	bounding membrane of organelle
C	0098830	cellular_component	presynaptic endosome
C	0099638	biological_process	endosome to plasma membrane protein transport
C	1903542	biological_process	negative regulation of exosomal secretion
C	1903543	biological_process	positive regulation of exosomal secretion
C	1905394	molecular_function	retromer complex binding
D	0000045	biological_process	autophagosome assembly
D	0000166	molecular_function	nucleotide binding
D	0000421	cellular_component	autophagosome membrane
D	0003924	molecular_function	GTPase activity
D	0003925	molecular_function	G protein activity
D	0005515	molecular_function	protein binding
D	0005525	molecular_function	GTP binding
D	0005739	cellular_component	mitochondrion
D	0005764	cellular_component	lysosome
D	0005765	cellular_component	lysosomal membrane
D	0005770	cellular_component	late endosome
D	0005811	cellular_component	lipid droplet
D	0005829	cellular_component	cytosol
D	0006622	biological_process	protein targeting to lysosome
D	0006629	biological_process	lipid metabolic process
D	0006914	biological_process	autophagy
D	0007174	biological_process	epidermal growth factor catabolic process
D	0008333	biological_process	endosome to lysosome transport
D	0009617	biological_process	response to bacterium
D	0010008	cellular_component	endosome membrane
D	0015031	biological_process	protein transport
D	0016042	biological_process	lipid catabolic process
D	0016787	molecular_function	hydrolase activity
D	0019003	molecular_function	GDP binding
D	0019076	biological_process	viral release from host cell
D	0022615	biological_process	protein to membrane docking
D	0030670	cellular_component	phagocytic vesicle membrane
D	0030672	cellular_component	synaptic vesicle membrane
D	0030904	cellular_component	retromer complex
D	0031267	molecular_function	small GTPase binding
D	0031410	cellular_component	cytoplasmic vesicle
D	0031902	cellular_component	late endosome membrane
D	0031966	cellular_component	mitochondrial membrane
D	0032935	molecular_function	sterol sensor activity
D	0032991	cellular_component	protein-containing complex
D	0033162	cellular_component	melanosome membrane
D	0034045	cellular_component	phagophore assembly site membrane
D	0036466	biological_process	synaptic vesicle recycling via endosome
D	0042147	biological_process	retrograde transport, endosome to Golgi
D	0042632	biological_process	cholesterol homeostasis
D	0043195	cellular_component	terminal bouton
D	0045022	biological_process	early endosome to late endosome transport
D	0045335	cellular_component	phagocytic vesicle
D	0045453	biological_process	bone resorption
D	0045732	biological_process	positive regulation of protein catabolic process
D	0046872	molecular_function	metal ion binding
D	0048524	biological_process	positive regulation of viral process
D	0061462	biological_process	protein localization to lysosome
D	0061724	biological_process	lipophagy
D	0070382	cellular_component	exocytic vesicle
D	0090120	biological_process	lysosome to ER cholesterol transport
D	0090383	biological_process	phagosome acidification
D	0090385	biological_process	phagosome-lysosome fusion
D	0097208	cellular_component	alveolar lamellar body
D	0098588	cellular_component	bounding membrane of organelle
D	0098830	cellular_component	presynaptic endosome
D	0099638	biological_process	endosome to plasma membrane protein transport
D	1903542	biological_process	negative regulation of exosomal secretion
D	1903543	biological_process	positive regulation of exosomal secretion
D	1905394	molecular_function	retromer complex binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MG A 1401

Chain	Residue
A	THR1022
A	THR1040
A	GNP1400
A	HOH5002
A	HOH5314

---

site_id	AC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MG B 2401

Chain	Residue
B	HOH5315
B	THR2022
B	THR2040
B	GNP2400
B	HOH5006

---

site_id	AC3
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MG C 3401

Chain	Residue
C	THR3022
C	THR3040
C	GNP3400
C	HOH5001
C	HOH5009

---

site_id	AC4
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MG D 4401

Chain	Residue
D	THR4022
D	THR4040
D	GNP4400
D	HOH5003
D	HOH5316

---

site_id	AC5
Number of Residues	27
Details	BINDING SITE FOR RESIDUE GNP A 1400

Chain	Residue
A	SER1017
A	GLY1018
A	VAL1019
A	GLY1020
A	LYS1021
A	THR1022
A	SER1023
A	PHE1033
A	SER1034
A	ASN1035
A	TYR1037
A	THR1040
A	GLY1066
A	ASN1125
A	LYS1126
A	ASP1128
A	LEU1129
A	SER1155
A	ALA1156
A	LYS1157
A	MG1401
A	HOH5002
A	HOH5017
A	HOH5033
A	HOH5079
A	HOH5314
A	HOH5456

---

site_id	AC6
Number of Residues	26
Details	BINDING SITE FOR RESIDUE GNP B 2400

Chain	Residue
B	SER2017
B	GLY2018
B	VAL2019
B	GLY2020
B	LYS2021
B	THR2022
B	SER2023
B	PHE2033
B	SER2034
B	ASN2035
B	TYR2037
B	THR2040
B	GLY2066
B	ASN2125
B	LYS2126
B	ASP2128
B	LEU2129
B	SER2155
B	ALA2156
B	LYS2157
B	MG2401
B	HOH5006
B	HOH5020
B	HOH5028
B	HOH5156
B	HOH5315

---

site_id	AC7
Number of Residues	26
Details	BINDING SITE FOR RESIDUE GNP C 3400

Chain	Residue
C	SER3017
C	GLY3018
C	VAL3019
C	GLY3020
C	LYS3021
C	THR3022
C	SER3023
C	PHE3033
C	SER3034
C	ASN3035
C	TYR3037
C	THR3040
C	GLY3066
C	ASN3125
C	LYS3126
C	ASP3128
C	LEU3129
C	SER3155
C	ALA3156
C	LYS3157
C	MG3401
C	HOH5001
C	HOH5009
C	HOH5013
C	HOH5032
C	HOH5219

---

site_id	AC8
Number of Residues	28
Details	BINDING SITE FOR RESIDUE GNP D 4400

Chain	Residue
D	SER4017
D	GLY4018
D	VAL4019
D	GLY4020
D	LYS4021
D	THR4022
D	SER4023
D	PHE4033
D	SER4034
D	ASN4035
D	TYR4037
D	THR4040
D	GLY4066
D	ASN4125
D	LYS4126
D	ASP4128
D	LEU4129
D	SER4155
D	ALA4156
D	LYS4157
D	MG4401
D	HOH5003
D	HOH5024
D	HOH5027
D	HOH5069
D	HOH5177
D	HOH5316
D	HOH5425

---

Functional Information from PROSITE/UniProt

site_id	PS00675
Number of Residues	14
Details	SIGMA54_INTERACT_1 Sigma-54 interaction domain ATP-binding region A signature. VIIlGDSGVGKtsL

Chain	Residue	Details
A	VAL1011-LEU1024

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	52
Details	Motif: {"description":"Switch 1","evidences":[{"source":"UniProtKB","id":"P51149","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	60
Details	Motif: {"description":"Switch 2","evidences":[{"source":"UniProtKB","id":"P51149","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	72
Details	Binding site: {"evidences":[{"source":"UniProtKB","id":"P51149","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	4
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"22673903","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

Catalytic Information from CSA

site_id	CSA1
Number of Residues	1
Details	Annotated By Reference To The Literature 1ksj

Chain	Residue	Details
A	GLN1067

---

site_id	CSA2
Number of Residues	1
Details	Annotated By Reference To The Literature 1ksj

Chain	Residue	Details
B	GLN2067

---

site_id	CSA3
Number of Residues	1
Details	Annotated By Reference To The Literature 1ksj

Chain	Residue	Details
C	GLN3067

---

site_id	CSA4
Number of Residues	1
Details	Annotated By Reference To The Literature 1ksj

Chain	Residue	Details
D	GLN4067

---

site_id	CSA5
Number of Residues	1
Details	Annotated By Reference To The Literature 1ksj

Chain	Residue	Details
A	GLY1018

---

site_id	CSA6
Number of Residues	1
Details	Annotated By Reference To The Literature 1ksj

Chain	Residue	Details
B	GLY2018

---

site_id	CSA7
Number of Residues	1
Details	Annotated By Reference To The Literature 1ksj

Chain	Residue	Details
C	GLY3018

---

site_id	CSA8
Number of Residues	1
Details	Annotated By Reference To The Literature 1ksj

Chain	Residue	Details
D	GLY4018

---