BioLiP

PDB

1a4r Nucleotide binding to the G12V-mutant of Cdc42 investigated by X-ray diffraction and fluorescence spectroscopy: two different nucleotide states in one crystal.

Chain

Resolution

2.5 Å

3D
structure

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Site
#

Ligand

Ligand
chain

Binding residues on receptor
(original residue number in PDB)

Binding residues on receptor
(residue number reindexed from 1)

Binding affinity

BS01

GDP

A13 V14 G15 K16 T17 C18 F28 Q116 D118 L119 S158 A159 L160

MOAD: Kd=9.4pM

Molecular Function

GTPase activity

G protein activity

protein binding

GTP binding

hydrolase activity

protein kinase binding

GO:0030742

GTP-dependent protein binding

GO:0031435

mitogen-activated protein kinase kinase kinase binding

GO:0031996

thioesterase binding

GO:0032427

GBD domain binding

GO:0034191

apolipoprotein A-I receptor binding

GO:0042802

identical protein binding

GO:0061630

ubiquitin protein ligase activity

	Biological Process
GO:0002040	sprouting angiogenesis
GO:0003015	heart process
GO:0003161	cardiac conduction system development
GO:0003253	cardiac neural crest cell migration involved in outflow tract morphogenesis
GO:0006897	endocytosis
GO:0006911	phagocytosis, engulfment
GO:0007015	actin filament organization
GO:0007030	Golgi organization
GO:0007088	regulation of mitotic nuclear division
GO:0007097	nuclear migration
GO:0007163	establishment or maintenance of cell polarity
GO:0007229	integrin-mediated signaling pathway
GO:0007264	small GTPase-mediated signal transduction
GO:0007399	nervous system development
GO:0008104	protein localization
GO:0009653	anatomical structure morphogenesis
GO:0010591	regulation of lamellipodium assembly
GO:0010592	positive regulation of lamellipodium assembly
GO:0021762	substantia nigra development
GO:0030036	actin cytoskeleton organization
GO:0030154	cell differentiation
GO:0030225	macrophage differentiation
GO:0030307	positive regulation of cell growth
GO:0030335	positive regulation of cell migration
GO:0031274	positive regulation of pseudopodium assembly
GO:0031333	negative regulation of protein-containing complex assembly
GO:0032467	positive regulation of cytokinesis
GO:0032488	Cdc42 protein signal transduction
GO:0032956	regulation of actin cytoskeleton organization
GO:0034329	cell junction assembly
GO:0034332	adherens junction organization
GO:0035050	embryonic heart tube development
GO:0035088	establishment or maintenance of apical/basal cell polarity
GO:0036336	dendritic cell migration
GO:0038189	neuropilin signaling pathway
GO:0043410	positive regulation of MAPK cascade
GO:0043525	positive regulation of neuron apoptotic process
GO:0044788	modulation by host of viral process
GO:0045198	establishment of epithelial cell apical/basal polarity
GO:0045740	positive regulation of DNA replication
GO:0046330	positive regulation of JNK cascade
GO:0046847	filopodium assembly
GO:0048549	positive regulation of pinocytosis
GO:0048664	neuron fate determination
GO:0051130	positive regulation of cellular component organization
GO:0051489	regulation of filopodium assembly
GO:0051491	positive regulation of filopodium assembly
GO:0051492	regulation of stress fiber assembly
GO:0051496	positive regulation of stress fiber assembly
GO:0051647	nucleus localization
GO:0051649	establishment of localization in cell
GO:0051683	establishment of Golgi localization
GO:0051835	positive regulation of synapse structural plasticity
GO:0051897	positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction
GO:0051988	regulation of attachment of spindle microtubules to kinetochore
GO:0060047	heart contraction
GO:0060071	Wnt signaling pathway, planar cell polarity pathway
GO:0060501	positive regulation of epithelial cell proliferation involved in lung morphogenesis
GO:0060661	submandibular salivary gland formation
GO:0060997	dendritic spine morphogenesis
GO:0071346	cellular response to type II interferon
GO:0072384	organelle transport along microtubule
GO:0086101	endothelin receptor signaling pathway involved in heart process
GO:0090135	actin filament branching
GO:0090316	positive regulation of intracellular protein transport
GO:0099159	regulation of modification of postsynaptic structure
GO:0099175	regulation of postsynapse organization
GO:1900026	positive regulation of substrate adhesion-dependent cell spreading

Biological Process

GO:0002040

sprouting angiogenesis

GO:0003015

heart process

GO:0003161

cardiac conduction system development

GO:0003253

cardiac neural crest cell migration involved in outflow tract morphogenesis

GO:0006897

endocytosis

GO:0006911

phagocytosis, engulfment

GO:0007015

actin filament organization

GO:0007030

Golgi organization

GO:0007088

regulation of mitotic nuclear division

GO:0007097

nuclear migration

GO:0007163

establishment or maintenance of cell polarity

GO:0007229

integrin-mediated signaling pathway

GO:0007264

small GTPase-mediated signal transduction

GO:0007399

nervous system development

GO:0008104

protein localization

GO:0009653

anatomical structure morphogenesis

GO:0010591

regulation of lamellipodium assembly

GO:0010592

positive regulation of lamellipodium assembly

GO:0021762

substantia nigra development

GO:0030036

actin cytoskeleton organization

GO:0030154

cell differentiation

GO:0030225

macrophage differentiation

GO:0030307

positive regulation of cell growth

GO:0030335

positive regulation of cell migration

GO:0031274

positive regulation of pseudopodium assembly

GO:0031333

negative regulation of protein-containing complex assembly

GO:0032467

positive regulation of cytokinesis

GO:0032488

Cdc42 protein signal transduction

GO:0032956

regulation of actin cytoskeleton organization

GO:0034329

cell junction assembly

GO:0034332

adherens junction organization

GO:0035050

embryonic heart tube development

GO:0035088

establishment or maintenance of apical/basal cell polarity

GO:0036336

dendritic cell migration

GO:0038189

neuropilin signaling pathway

GO:0043410

positive regulation of MAPK cascade

GO:0043525

positive regulation of neuron apoptotic process

GO:0044788

modulation by host of viral process

GO:0045198

establishment of epithelial cell apical/basal polarity

GO:0045740

positive regulation of DNA replication

GO:0046330

positive regulation of JNK cascade

GO:0046847

filopodium assembly

GO:0048549

positive regulation of pinocytosis

GO:0048664

neuron fate determination

GO:0051130

positive regulation of cellular component organization

GO:0051489

regulation of filopodium assembly

GO:0051491

positive regulation of filopodium assembly

GO:0051492

regulation of stress fiber assembly

GO:0051496

positive regulation of stress fiber assembly

GO:0051647

nucleus localization

GO:0051649

establishment of localization in cell

GO:0051683

establishment of Golgi localization

GO:0051835

positive regulation of synapse structural plasticity

GO:0051897

positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction

GO:0051988

regulation of attachment of spindle microtubules to kinetochore

GO:0060047

heart contraction

GO:0060071

Wnt signaling pathway, planar cell polarity pathway

GO:0060501

positive regulation of epithelial cell proliferation involved in lung morphogenesis

GO:0060661

submandibular salivary gland formation

GO:0060997

dendritic spine morphogenesis

GO:0071346

cellular response to type II interferon

GO:0072384

organelle transport along microtubule

GO:0086101

endothelin receptor signaling pathway involved in heart process

GO:0090135

actin filament branching

GO:0090316

positive regulation of intracellular protein transport

GO:0099159

regulation of modification of postsynaptic structure

GO:0099175

regulation of postsynapse organization

GO:1900026

positive regulation of substrate adhesion-dependent cell spreading

	Cellular Component
GO:0000139	Golgi membrane
GO:0000322	storage vacuole
GO:0005737	cytoplasm
GO:0005789	endoplasmic reticulum membrane
GO:0005813	centrosome
GO:0005819	spindle
GO:0005829	cytosol
GO:0005856	cytoskeleton
GO:0005886	plasma membrane
GO:0005911	cell-cell junction
GO:0005925	focal adhesion
GO:0016020	membrane
GO:0017119	Golgi transport complex
GO:0030141	secretory granule
GO:0030175	filopodium
GO:0030425	dendrite
GO:0030496	midbody
GO:0031252	cell leading edge
GO:0031256	leading edge membrane
GO:0032991	protein-containing complex
GO:0036464	cytoplasmic ribonucleoprotein granule
GO:0042995	cell projection
GO:0043005	neuron projection
GO:0043025	neuronal cell body
GO:0043197	dendritic spine
GO:0045177	apical part of cell
GO:0045335	phagocytic vesicle
GO:0051233	spindle midzone
GO:0070062	extracellular exosome
GO:0071944	cell periphery
GO:0072686	mitotic spindle
GO:0098685	Schaffer collateral - CA1 synapse
GO:0098794	postsynapse
GO:0098978	glutamatergic synapse

Cellular Component

Golgi membrane

storage vacuole

cytoplasm

endoplasmic reticulum membrane

centrosome

spindle

cytosol

cytoskeleton

plasma membrane

cell-cell junction

focal adhesion

membrane

Golgi transport complex

secretory granule

filopodium

dendrite

midbody

cell leading edge

leading edge membrane

GO:0032991

protein-containing complex

GO:0036464

cytoplasmic ribonucleoprotein granule

cell projection

neuron projection

neuronal cell body

dendritic spine

apical part of cell

phagocytic vesicle

spindle midzone

extracellular exosome

GO:0071944

cell periphery

GO:0072686

mitotic spindle

GO:0098685

Schaffer collateral - CA1 synapse

GO:0098794

postsynapse

GO:0098978

glutamatergic synapse

PDB	RCSB:1a4r, PDBe:1a4r, PDBj:1a4r
PDBsum	1a4r
PubMed	10211824
UniProt	P60953\|CDC42_HUMAN Cell division control protein 42 homolog (Gene Name=CDC42)

Structure of PDB 1a4r Chain A