Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4HLQ

Crystal structure of human rab1b bound to GDP and BEF3 in complex with the GAP domain of TBC1D20 from homo sapiens

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005096	molecular_function	GTPase activator activity
A	0016192	biological_process	vesicle-mediated transport
A	0043547	biological_process	positive regulation of GTPase activity
B	0003924	molecular_function	GTPase activity
B	0005525	molecular_function	GTP binding
C	0005096	molecular_function	GTPase activator activity
C	0016192	biological_process	vesicle-mediated transport
C	0043547	biological_process	positive regulation of GTPase activity
D	0003924	molecular_function	GTPase activity
D	0005525	molecular_function	GTP binding
E	0005096	molecular_function	GTPase activator activity
E	0016192	biological_process	vesicle-mediated transport
E	0043547	biological_process	positive regulation of GTPase activity
F	0003924	molecular_function	GTPase activity
F	0005525	molecular_function	GTP binding
G	0005096	molecular_function	GTPase activator activity
G	0016192	biological_process	vesicle-mediated transport
G	0043547	biological_process	positive regulation of GTPase activity
H	0003924	molecular_function	GTPase activity
H	0005525	molecular_function	GTP binding
I	0005096	molecular_function	GTPase activator activity
I	0016192	biological_process	vesicle-mediated transport
I	0043547	biological_process	positive regulation of GTPase activity
J	0003924	molecular_function	GTPase activity
J	0005525	molecular_function	GTP binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	2
Details	BINDING SITE FOR RESIDUE SO4 A 401

Chain	Residue
A	ARG67
A	ARG160

site_id	AC2
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MG B 201

Chain	Residue
B	SER22
B	THR40
B	ASP63
B	THR64
B	GDP202
B	BEF203

site_id	AC3
Number of Residues	19
Details	BINDING SITE FOR RESIDUE GDP B 202

Chain	Residue
B	SER17
B	GLY18
B	GLY20
B	LYS21
B	SER22
B	CYS23
B	TYR33
B	GLU35
B	SER36
B	THR40
B	ASN121
B	LYS122
B	ASP124
B	LEU125
B	ALA152
B	LYS153
B	MG201
B	BEF203
A	ARG105

site_id	AC4
Number of Residues	10
Details	BINDING SITE FOR RESIDUE BEF B 203

Chain	Residue
A	ARG105
A	GLN144
B	SER17
B	LYS21
B	THR40
B	THR64
B	ALA65
B	GLY66
B	MG201
B	GDP202

site_id	AC5
Number of Residues	2
Details	BINDING SITE FOR RESIDUE SO4 C 401

Chain	Residue
A	ASN88
C	SER293

site_id	AC6
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG D 201

Chain	Residue
D	SER22
D	THR40
D	GDP202
D	BEF203

site_id	AC7
Number of Residues	17
Details	BINDING SITE FOR RESIDUE GDP D 202

Chain	Residue
C	ARG105
D	GLY18
D	VAL19
D	GLY20
D	LYS21
D	SER22
D	CYS23
D	TYR33
D	GLU35
D	ASN121
D	LYS122
D	ASP124
D	LEU125
D	ALA152
D	LYS153
D	MG201
D	BEF203

site_id	AC8
Number of Residues	10
Details	BINDING SITE FOR RESIDUE BEF D 203

Chain	Residue
C	ARG105
C	GLN144
D	SER17
D	LYS21
D	SER22
D	THR40
D	THR64
D	GLY66
D	MG201
D	GDP202

site_id	AC9
Number of Residues	1
Details	BINDING SITE FOR RESIDUE SO4 E 401

Chain	Residue
E	ARG160

site_id	BC1
Number of Residues	2
Details	BINDING SITE FOR RESIDUE SO4 E 402

Chain	Residue
E	ARG175
H	GLN104

site_id	BC2
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG F 201

Chain	Residue
F	SER22
F	THR40
F	GDP202
F	BEF203

site_id	BC3
Number of Residues	18
Details	BINDING SITE FOR RESIDUE GDP F 202

Chain	Residue
E	ARG105
F	GLY18
F	VAL19
F	GLY20
F	LYS21
F	SER22
F	CYS23
F	TYR33
F	GLU35
F	ASN121
F	LYS122
F	ASP124
F	LEU125
F	SER151
F	ALA152
F	LYS153
F	MG201
F	BEF203

site_id	BC4
Number of Residues	10
Details	BINDING SITE FOR RESIDUE BEF F 203

Chain	Residue
F	LYS21
F	THR40
F	THR64
F	GLY66
F	MG201
F	GDP202
E	ARG105
E	GLN144
F	SER17
F	GLY18

site_id	BC5
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG H 201

Chain	Residue
H	SER22
H	THR40
H	GDP202
H	BEF203

site_id	BC6
Number of Residues	16
Details	BINDING SITE FOR RESIDUE GDP H 202

Chain	Residue
G	ARG105
H	GLY18
H	VAL19
H	GLY20
H	LYS21
H	SER22
H	CYS23
H	TYR33
H	GLU35
H	SER36
H	ASN121
H	ASP124
H	ALA152
H	LYS153
H	MG201
H	BEF203

site_id	BC7
Number of Residues	10
Details	BINDING SITE FOR RESIDUE BEF H 203

Chain	Residue
G	ARG105
G	GLN144
H	SER17
H	LYS21
H	THR40
H	THR64
H	ALA65
H	GLY66
H	MG201
H	GDP202

site_id	BC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 I 401

Chain	Residue
I	PRO287
I	TYR288
I	GLU289
I	THR290

site_id	BC9
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG J 201

Chain	Residue
J	SER22
J	THR40
J	GDP202
J	BEF203

site_id	CC1
Number of Residues	20
Details	BINDING SITE FOR RESIDUE GDP J 202

Chain	Residue
I	ARG105
J	ASP16
J	SER17
J	GLY18
J	VAL19
J	GLY20
J	LYS21
J	SER22
J	CYS23
J	TYR33
J	GLU35
J	THR40
J	ASN121
J	LYS122
J	ASP124
J	SER151
J	ALA152
J	LYS153
J	MG201
J	BEF203

site_id	CC2
Number of Residues	8
Details	BINDING SITE FOR RESIDUE BEF J 203

Chain	Residue
I	ARG105
I	GLN144
J	SER17
J	GLY18
J	THR40
J	GLY66
J	MG201
J	GDP202

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	100
Details	Transmembrane: {"description":"Helical","evidences":[{"evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	930
Details	Domain: {"description":"Rab-GAP TBC","evidences":[{"source":"PROSITE-ProRule","id":"PRU00163","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	5
Details	Site: {"description":"Arginine finger","evidences":[{"source":"PubMed","id":"23236136","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	5
Details	Site: {"description":"Glutamine finger","evidences":[{"source":"PubMed","id":"23236136","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	40
Details	Region: {"description":"Switch-I","evidences":[{"source":"PROSITE-ProRule","id":"PRU00753","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"20064470","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3JZA","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	95
Details	Region: {"description":"Switch 2 region; required for interaction with REP1/CHM"}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	80
Details	Region: {"description":"Switch-II; required for interaction with REP1/CHM","evidences":[{"source":"PROSITE-ProRule","id":"PRU00753","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"20064470","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3JZA","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	50
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_FI9
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_FI10
Number of Residues	5
Details	Binding site: {"evidences":[{"source":"PDB","id":"3NKV","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI11
Number of Residues	10
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_FI12
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_FI13
Number of Residues	10
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_FI14
Number of Residues	5
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_FI15
Number of Residues	5
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_FI16
Number of Residues	5
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_FI17
Number of Residues	5
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)