4KYI

Crystal structure of the phospholipase VipD from Legionella pneumophila in complex with the human GTPase Rab5

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0006629	biological_process	lipid metabolic process
B	0003924	molecular_function	GTPase activity
B	0005525	molecular_function	GTP binding
C	0006629	biological_process	lipid metabolic process
D	0003924	molecular_function	GTPase activity
D	0005525	molecular_function	GTP binding
E	0006629	biological_process	lipid metabolic process
F	0003924	molecular_function	GTPase activity
F	0005525	molecular_function	GTP binding
G	0006629	biological_process	lipid metabolic process
H	0003924	molecular_function	GTPase activity
H	0005525	molecular_function	GTP binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	2
Details	BINDING SITE FOR RESIDUE EDO A 601

Chain	Residue
A	ARG338
A	THR355

---

site_id	AC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE EDO A 602

Chain	Residue
A	LYS245
A	GLU249
A	ASN280
A	LYS282
A	GLU284

---

site_id	AC3
Number of Residues	2
Details	BINDING SITE FOR RESIDUE GOL A 603

Chain	Residue
A	SER357
A	GLU362

---

site_id	AC4
Number of Residues	3
Details	BINDING SITE FOR RESIDUE GOL A 604

Chain	Residue
A	ALA331
A	ARG361
A	ILE542

---

site_id	AC5
Number of Residues	21
Details	BINDING SITE FOR RESIDUE GNP B 301

Chain	Residue
B	SER30
B	ALA31
B	VAL32
B	GLY33
B	LYS34
B	SER35
B	SER36
B	PHE46
B	HIS47
B	GLU48
B	SER52
B	THR53
B	GLY79
B	ASN134
B	LYS135
B	ASP137
B	LEU138
B	SER164
B	ALA165
B	LYS166
B	MG304

---

site_id	AC6
Number of Residues	3
Details	BINDING SITE FOR RESIDUE EDO B 302

Chain	Residue
B	SER35
B	LEU59
B	ASP76

---

site_id	AC7
Number of Residues	6
Details	BINDING SITE FOR RESIDUE EDO B 303

Chain	Residue
A	GLN476
A	ILE480
B	LYS23
B	TRP75
B	MET89
B	TYR90

---

site_id	AC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG B 304

Chain	Residue
B	SER35
B	THR53
B	ASP76
B	GNP301

---

site_id	AC9
Number of Residues	20
Details	BINDING SITE FOR RESIDUE GNP D 301

Chain	Residue
D	SER30
D	ALA31
D	VAL32
D	GLY33
D	LYS34
D	SER35
D	SER36
D	HIS47
D	GLU48
D	SER52
D	THR53
D	GLY79
D	ASN134
D	LYS135
D	ASP137
D	LEU138
D	SER164
D	ALA165
D	LYS166
D	MG302

---

site_id	BC1
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG D 302

Chain	Residue
D	SER35
D	THR53
D	GNP301

---

site_id	BC2
Number of Residues	2
Details	BINDING SITE FOR RESIDUE EDO E 601

Chain	Residue
E	SER333
E	TRP334

---

site_id	BC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE GOL E 602

Chain	Residue
E	SER357
E	ASN360
E	GLU362

---

site_id	BC4
Number of Residues	21
Details	BINDING SITE FOR RESIDUE GNP F 301

Chain	Residue
F	SER30
F	ALA31
F	VAL32
F	GLY33
F	LYS34
F	SER35
F	SER36
F	PHE46
F	HIS47
F	GLU48
F	SER52
F	THR53
F	THR77
F	GLY79
F	ASN134
F	LYS135
F	ASP137
F	SER164
F	ALA165
F	LYS166
F	MG302

---

site_id	BC5
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG F 302

Chain	Residue
F	SER35
F	THR53
F	GNP301

---

site_id	BC6
Number of Residues	6
Details	BINDING SITE FOR RESIDUE EDO G 601

Chain	Residue
G	ARG250
G	SER252
G	GLU297
G	ILE298
G	GLU299
G	SER237

---

site_id	BC7
Number of Residues	20
Details	BINDING SITE FOR RESIDUE GNP H 301

Chain	Residue
H	SER30
H	ALA31
H	VAL32
H	GLY33
H	LYS34
H	SER35
H	SER36
H	PHE46
H	HIS47
H	GLU48
H	SER52
H	THR53
H	GLY79
H	ASN134
H	LYS135
H	ASP137
H	SER164
H	ALA165
H	LYS166
H	MG302

---

site_id	BC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG H 302

Chain	Residue
H	SER35
H	THR53
H	ASP76
H	GNP301

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	20
Details	BINDING: BINDING => ECO:0000250|UniProtKB:P20339

Chain	Residue	Details
B	GLY28
D	SER164
F	GLY28
F	HIS47
F	ASP76
F	ASN134
F	SER164
H	GLY28
H	HIS47
H	ASP76
H	ASN134
B	HIS47
H	SER164
B	ASP76
B	ASN134
B	SER164
D	GLY28
D	HIS47
D	ASP76
D	ASN134

---

site_id	SWS_FT_FI2
Number of Residues	4
Details	MOD_RES: Phosphoserine; by LRRK2 => ECO:0000269|PubMed:29125462

Chain	Residue	Details
B	SER85
D	SER85
F	SER85
H	SER85

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