Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

5O74

Crystal structure of human Rab1b covalently bound to the GEF domain of DrrA/SidM from Legionella pneumophila in the presence of GDP

Functional Information from GO Data

Chain	GOid	namespace	contents
B	0003924	molecular_function	GTPase activity
B	0005525	molecular_function	GTP binding
D	0003924	molecular_function	GTPase activity
D	0005525	molecular_function	GTP binding
F	0003924	molecular_function	GTPase activity
F	0005525	molecular_function	GTP binding
H	0003924	molecular_function	GTPase activity
H	0005525	molecular_function	GTP binding
J	0003924	molecular_function	GTPase activity
J	0005525	molecular_function	GTP binding
L	0003924	molecular_function	GTPase activity
L	0005525	molecular_function	GTP binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	14
Details	binding site for residue GDP B 500

Chain	Residue
B	ASP16
B	ASP124
B	LEU125
B	SER151
B	ALA152
B	LYS153
B	GLY18
B	VAL19
B	GLY20
B	LYS21
B	SER22
B	CYS23
B	ASN121
B	LYS122

site_id	AC2
Number of Residues	15
Details	binding site for residue GDP D 500

Chain	Residue
D	ASP16
D	SER17
D	GLY18
D	VAL19
D	GLY20
D	LYS21
D	SER22
D	CYS23
D	ASN121
D	LYS122
D	ASP124
D	LEU125
D	SER151
D	ALA152
D	LYS153

site_id	AC3
Number of Residues	14
Details	binding site for residue GDP F 500

Chain	Residue
F	ASP16
F	GLY18
F	VAL19
F	GLY20
F	LYS21
F	SER22
F	CYS23
F	ASN121
F	LYS122
F	ASP124
F	LEU125
F	SER151
F	ALA152
F	LYS153

site_id	AC4
Number of Residues	12
Details	binding site for residue GDP H 500

Chain	Residue
H	GLY18
H	VAL19
H	GLY20
H	LYS21
H	SER22
H	CYS23
H	ASN121
H	LYS122
H	ASP124
H	SER151
H	ALA152
H	LYS153

site_id	AC5
Number of Residues	12
Details	binding site for residue GDP J 500

Chain	Residue
J	ASP16
J	GLY18
J	VAL19
J	GLY20
J	LYS21
J	SER22
J	CYS23
J	ASN121
J	LYS122
J	SER151
J	ALA152
J	LYS153

site_id	AC6
Number of Residues	15
Details	binding site for residue GDP L 500

Chain	Residue
L	ASP16
L	SER17
L	GLY18
L	VAL19
L	GLY20
L	LYS21
L	SER22
L	CYS23
L	ASN121
L	LYS122
L	ASP124
L	LEU125
L	SER151
L	ALA152
L	LYS153

site_id	AC7
Number of Residues	6
Details	binding site for Di-peptide TYR D 78 and 9MN D 79

Chain	Residue
C	ARG418
C	CYS512
D	ILE14
D	GLY80
D	ALA81
K	ASP459

site_id	AC8
Number of Residues	10
Details	binding site for Di-peptide 9MN D 79 and CYS C 512

Chain	Residue
C	ARG418
C	ASN511
C	GLU513
C	THR514
C	LEU515
C	GLU516
D	TYR78
D	GLY80
D	ALA81
K	ASP459

site_id	AC9
Number of Residues	5
Details	binding site for Di-peptide 9MN D 79 and GLY D 80

Chain	Residue
C	CYS512
D	TYR78
D	ALA81
K	ASP459
C	ARG418

site_id	AD1
Number of Residues	10
Details	binding site for Di-peptide TYR F 78 and 9MN F 79

Chain	Residue
E	ARG418
E	CYS512
E	GLU513
F	THR74
F	SER75
F	SER76
F	TYR77
F	GLY80
F	ALA81
F	TYR109

site_id	AD2
Number of Residues	10
Details	binding site for Di-peptide 9MN F 79 and CYS E 512

Chain	Residue
E	ARG418
E	ASN511
E	GLU513
E	THR514
E	LEU515
E	GLU516
F	SER75
F	TYR78
F	GLY80
F	ALA81

site_id	AD3
Number of Residues	6
Details	binding site for Di-peptide 9MN F 79 and GLY F 80

Chain	Residue
E	ARG418
E	CYS512
E	GLU513
F	SER75
F	TYR78
F	ALA81

site_id	AD4
Number of Residues	9
Details	binding site for Di-peptide TYR H 78 and 9MN H 79

Chain	Residue
G	ARG418
G	CYS512
H	THR74
H	SER75
H	SER76
H	TYR77
H	GLY80
H	ALA81
H	TYR109

site_id	AD5
Number of Residues	5
Details	binding site for Di-peptide 9MN H 79 and GLY H 80

Chain	Residue
G	ARG418
G	CYS512
H	SER75
H	TYR78
H	ALA81

site_id	AD6
Number of Residues	10
Details	binding site for Di-peptide 9MN H 79 and CYS G 512

Chain	Residue
G	ARG418
G	ASN511
G	GLU513
G	THR514
G	LEU515
G	GLU516
H	SER75
H	TYR78
H	GLY80
H	ALA81

site_id	AD7
Number of Residues	9
Details	binding site for Di-peptide TYR J 78 and 9MN J 79

Chain	Residue
I	ARG418
I	CYS512
J	THR74
J	SER75
J	SER76
J	TYR77
J	GLY80
J	ALA81
J	TYR109

site_id	AD8
Number of Residues	5
Details	binding site for Di-peptide 9MN J 79 and GLY J 80

Chain	Residue
I	ARG418
I	CYS512
J	SER75
J	TYR78
J	ALA81

site_id	AD9
Number of Residues	10
Details	binding site for Di-peptide 9MN J 79 and CYS I 512

Chain	Residue
I	ARG418
I	ASN511
I	GLU513
I	THR514
I	LEU515
I	GLU516
J	SER75
J	TYR78
J	GLY80
J	ALA81

site_id	AE1
Number of Residues	6
Details	binding site for Di-peptide TYR L 78 and 9MN L 79

Chain	Residue
K	ASP415
K	ARG418
K	CYS512
L	GLY80
L	ALA81
L	ILE106

site_id	AE2
Number of Residues	6
Details	binding site for Di-peptide 9MN L 79 and GLY L 80

Chain	Residue
K	ASP415
K	ARG418
K	CYS512
L	LYS10
L	TYR78
L	ALA81

site_id	AE3
Number of Residues	10
Details	binding site for Di-peptide 9MN L 79 and CYS K 512

Chain	Residue
K	ASP415
K	ARG418
K	ASN511
K	GLU513
K	THR514
K	LEU515
K	GLU516
L	TYR78
L	GLY80
L	ALA81

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. LLLiGDSGVGKscL

Chain	Residue	Details
B	LEU11-LEU24

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	180
Details	Region: {"description":"Rab1 guanine nucleotide exchange factor"}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	60
Details	Motif: {"description":"Switch 1","evidences":[{"source":"PubMed","id":"20064470","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3JZA","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	56
Details	Binding site: {"evidences":[{"source":"PubMed","id":"20651120","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27552051","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3NKV","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5SZH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5SZK","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	10
Details	Binding site: {"evidences":[{"source":"PubMed","id":"27552051","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5SZH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5SZK","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	6
Details	Binding site: {"evidences":[{"source":"PDB","id":"3NKV","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	12
Details	Binding site: {"evidences":[{"source":"PubMed","id":"20651120","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"23236136","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27552051","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3NKV","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4HLQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4I1O","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5SZH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5SZK","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	10
Details	Binding site: {"evidences":[{"source":"PubMed","id":"27552051","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5SZH","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	9
Details	Binding site: {"evidences":[{"source":"PubMed","id":"20651120","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3NKV","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI9
Number of Residues	6
Details	Binding site: {"evidences":[{"source":"PubMed","id":"23236136","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27552051","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4HLQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5SZH","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI10
Number of Residues	6
Details	Binding site: {"evidences":[{"source":"PubMed","id":"27552051","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5SZK","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI11
Number of Residues	4
Details	Modified residue: {"description":"(Microbial infection) O-(2-cholinephosphoryl)serine","evidences":[{"source":"PubMed","id":"21822290","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"22158903","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"22307087","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI12
Number of Residues	4
Details	Modified residue: {"description":"(Microbial infection) O-AMP-tyrosine","evidences":[{"source":"PubMed","id":"20651120","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)