Descriptions

Small GTPases couple their GDP/GTP structural cycle to cytosol/membrane alternation to function as versatile molecular switches in the cell. Membrane localization of their active, GTP-bound form is pivotal to their ability to propagate information, and this requires their post-translational modification by lipids.
Arf GTPases are modified by a myristate attached to their N-terminus, which is shielded by intramolecular interactions in their inactive state. The myristoylated N-terminus of Arf is autoinhibitory in solution and is displaced by membranes, priming Arf GTPases for activation by their GEFs. Replacement of the N-terminal myristate by a 6xHis-tag preserves autoinhibition, representing that membranes unlock the N-terminal region to facilitate subsequent activation.

Autoinhibitory domains (AIDs)

Target domain

16-141 (Small GTP-binding protein domain)

Relief mechanism

Ligand binding

Assay

Mutagenesis experiment

Accessory elements

No accessory elements

Autoinhibited structure

Activated structure

27 structures for P84077

Entry ID Method Resolution Chain Position Source
1HUR X-ray 200 A A/B 2-181 PDB
1RE0 X-ray 240 A A 18-181 PDB
1U81 NMR - A 18-181 PDB
3O47 X-ray 280 A A/B 11-181 PDB
4HMY X-ray 700 A C 17-181 PDB
6CM9 EM 373 A C/H 17-181 PDB
6CRI EM 680 A C/H/K/L/U/V 17-181 PDB
6D83 EM 427 A C/H 17-181 PDB
6D84 EM 672 A C/H/I/N 17-181 PDB
6DFF EM 390 A C/H 17-181 PDB
6FAE X-ray 235 A B 18-181 PDB
7DN8 X-ray 261 A B/D/F/H 17-181 PDB
7DN9 X-ray 329 A B/D/F/H 17-181 PDB
7MGE EM 394 A E 17-180 PDB
7R4H EM 234 A C/H 17-181 PDB
7UX3 EM 960 A C/H 2-181 PDB
8D4C EM 930 A C/D/F/H 2-181 PDB
8D4D EM 960 A C/D/F/H 2-181 PDB
8D4E EM 920 A C/H/Z 2-181 PDB
8D4F EM 980 A C/D/F/H/Q/Z 2-181 PDB
8D4G EM 1160 A C/D/F/H/Q/Z 1-181 PDB
8D9R EM 2000 A 3/4/5/6/7/C/H/J/K/O/P/Q/X/Z/a/b/c/d 2-181 PDB
8D9S EM 2000 A 3/4/5/6/7/C/H/J/K/O/P/Q/X/Z/a/b/c/d 2-181 PDB
8D9U EM 2000 A C/H/J/K/O/P/Q/X/Z/a/b/c 2-181 PDB
8D9W EM 930 A F/I 2-181 PDB
8SDW X-ray 175 A A 1-181 PDB
AF-P84077-F1 Predicted AlphaFoldDB

87 variants for P84077

Variant ID(s) Position Change Description Diseaes Association Provenance
rs2124857065
COSM1183326
RCV001845032
19 R>C Periventricular nodular heterotopia 8 Variant assessed as Somatic; MODERATE impact. large_intestine [ClinVar, NCI-TCGA, Cosmic] Yes NCI-TCGA Cosmic
cosmic curated
ClinVar
Ensembl
dbSNP
rs879036238
RCV001845033
35 Y>D Periventricular nodular heterotopia 8 [ClinVar] Yes ClinVar
Ensembl
dbSNP
rs879036238
VAR_081272
RCV000721169
35 Y>H Periventricular nodular heterotopia 8 PVNH8; decreased interaction with GGA3 [ClinVar, UniProt] Yes ClinVar
UniProt
Ensembl
dbSNP
rs1571844539
RCV000851181
48 T>I Periventricular nodular heterotopia 8 [ClinVar] Yes ClinVar
Ensembl
dbSNP
RCV001845034
rs2124857424
51 F>L Periventricular nodular heterotopia 8 [ClinVar] Yes ClinVar
Ensembl
dbSNP
rs2124857427
RCV001845029
51 F>L Periventricular nodular heterotopia 8 [ClinVar] Yes ClinVar
Ensembl
dbSNP
rs2124857526
RCV001843892
72 D>missing Periventricular nodular heterotopia 8 [ClinVar] Yes ClinVar
dbSNP
rs2124857932
RCV001845035
93 D>G Periventricular nodular heterotopia 8 [ClinVar] Yes ClinVar
Ensembl
dbSNP
rs1571845049
RCV000789499
98 E>A Charcot-Marie-Tooth disease [ClinVar] Yes ClinVar
Ensembl
dbSNP
rs1571845049
RCV000789500
98 E>G Charcot-Marie-Tooth disease [ClinVar] Yes ClinVar
Ensembl
dbSNP
RCV001845036
rs2124857939
99 R>C Periventricular nodular heterotopia 8 [ClinVar] Yes ClinVar
Ensembl
dbSNP
RCV001579777
rs1558087712
VAR_081273
RCV000721171
99 R>H Periventricular nodular heterotopia 8 PVNH8; uncertain significance [ClinVar, UniProt] Yes ClinVar
Ensembl
dbSNP
UniProt
VAR_081274
RCV000721170
rs1558087795
127 K>E Periventricular nodular heterotopia 8 PVNH8 [ClinVar, UniProt] Yes ClinVar
Ensembl
dbSNP
UniProt
rs2124858360
RCV001845031
131 P>L Periventricular nodular heterotopia 8 [ClinVar] Yes ClinVar
Ensembl
dbSNP
RCV001845030
rs2124858360
131 P>R Periventricular nodular heterotopia 8 [ClinVar] Yes ClinVar
Ensembl
dbSNP
rs2124856973 3 N>S No Ensembl
COSM3689392 4 I>S Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA Cosmic
rs2032773362 4 I>V No gnomAD
rs201883341 6 A>T No 1000Genomes
ESP
ExAC
TOPMed
gnomAD
rs778178441 7 N>S No ExAC
gnomAD
rs747344148 10 K>R No ExAC
gnomAD
TCGA novel 11 G>S Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA
rs11541562 12 L>P No Ensembl
TCGA novel 13 F>L Variant assessed as Somatic; HIGH impact. [NCI-TCGA] No NCI-TCGA
rs1448468387 15 K>R No gnomAD
TCGA novel 17 E>K Variant assessed as Somatic; HIGH impact. [NCI-TCGA] No NCI-TCGA
COSM1339437 17 E>R Variant assessed as Somatic; HIGH impact. [NCI-TCGA] No NCI-TCGA Cosmic
rs2124857075 22 M>L No Ensembl
COSM904931 25 L>M Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA Cosmic
rs1571844470 31 T>P No Ensembl
rs1434233811 32 T>M Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA
gnomAD
COSM904932 36 K>T Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA Cosmic
rs2124857181 40 G>D No Ensembl
TCGA novel 43 V>M Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA
rs1571844523 44 T>P No Ensembl
COSM464078 61 I>L Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA Cosmic
rs1182062930 65 V>A No gnomAD
RCV001311681
rs2032786415
66 W>R No ClinVar
Ensembl
dbSNP
rs1476367998 75 R>W No gnomAD
COSM5643928
rs752069371
79 R>C Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA Cosmic
ExAC
NCI-TCGA
gnomAD
COSM4028850 79 R>H Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA Cosmic
rs752069371 79 R>S No ExAC
gnomAD
rs1457087481 82 F>L No gnomAD
rs2032794637 88 L>V No TOPMed
rs2032794801 89 I>V No TOPMed
COSM4028851 91 V>M Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA Cosmic
rs1313181955 101 N>S No TOPMed
rs1447268730
COSM4028852
104 R>H Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA Cosmic
NCI-TCGA
TOPMed
gnomAD
COSM4028853
rs901254200
108 M>T Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA Cosmic
Ensembl
NCI-TCGA
rs2032795613 108 M>V No Ensembl
rs11541556 110 M>I No Ensembl
TCGA novel 112 A>V Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA
rs752583036 117 R>Q No ExAC
gnomAD
TCGA novel 119 A>V Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA
rs373715936 124 F>L No ESP
ExAC
TOPMed
gnomAD
COSM904934
rs1382592951
125 A>T Variant assessed as Somatic; MODERATE impact. endometrium [NCI-TCGA, Cosmic] No NCI-TCGA Cosmic
cosmic curated
NCI-TCGA
gnomAD
rs1571845119 126 N>K No Ensembl
COSM5182008 126 N>S Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA Cosmic
rs1157677154 133 A>T Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA
TOPMed
gnomAD
rs2032804281 137 A>S No TOPMed
COSM4391484
rs2032804281
137 A>T Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA Cosmic
TOPMed
rs776377227 137 A>V Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No Ensembl
NCI-TCGA
COSM6124799 139 I>T Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA Cosmic
rs1480071074 146 H>R No TOPMed
gnomAD
rs1409697252 147 S>L No gnomAD
COSM425499
rs1419831068
149 R>H Variant assessed as Somatic; MODERATE impact. breast [NCI-TCGA, Cosmic] No NCI-TCGA Cosmic
cosmic curated
NCI-TCGA
gnomAD
rs952976361 150 H>D No TOPMed
TCGA novel 151 R>G Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA
TCGA novel 151 R>K Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA
rs2032806188 155 I>F No TOPMed
rs1571845443 158 T>P No Ensembl
TCGA novel 158 T>S Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA
rs1444487351 159 C>G No gnomAD
rs1415720170 162 S>G No gnomAD
TCGA novel
rs2032807541
164 D>N Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA
TOPMed
rs1307521193 165 G>W No gnomAD
rs748951714 168 E>D No ExAC
TOPMed
gnomAD
rs1206052329 168 E>K No gnomAD
RCV002246972
rs2124858573
170 L>Q No ClinVar
Ensembl
dbSNP
rs768348405 171 D>E No ExAC
gnomAD
rs2032808332 172 W>* No TOPMed
rs773772662 174 S>A No ExAC
TCGA novel 175 N>D Variant assessed as Somatic; MODERATE impact. [NCI-TCGA] No NCI-TCGA
rs747640292 175 N>S No ExAC
TOPMed
gnomAD
rs963764078 178 R>Q No Ensembl
rs1571845542 179 N>D No Ensembl
rs1571845552 182 K>G No Ensembl

1 associated diseases with P84077

[MIM: 618185]: Periventricular nodular heterotopia 8 (PVNH8)

A form of periventricular nodular heterotopia, a disorder resulting from a defect in the pattern of neuronal migration in which ectopic collections of neurons lie along the lateral ventricles of the brain or just beneath, contiguously or in isolated patches. PVNH8 is an autosomal dominant disease characterized by developmental disabilities, speech delay, seizures and attention deficit hyperactivity disorder. . Note=The disease is caused by variants affecting the gene represented in this entry.

Without disease ID
  • A form of periventricular nodular heterotopia, a disorder resulting from a defect in the pattern of neuronal migration in which ectopic collections of neurons lie along the lateral ventricles of the brain or just beneath, contiguously or in isolated patches. PVNH8 is an autosomal dominant disease characterized by developmental disabilities, speech delay, seizures and attention deficit hyperactivity disorder. . Note=The disease is caused by variants affecting the gene represented in this entry.

7 regional properties for P84077

Type Name Position InterPro Accession
domain Protein kinase domain 270 - 523 IPR000719
domain SH2 domain 149 - 248 IPR000980
domain Serine-threonine/tyrosine-protein kinase, catalytic domain 271 - 518 IPR001245
domain SH3 domain 84 - 145 IPR001452
active_site Tyrosine-protein kinase, active site 385 - 397 IPR008266
binding_site Protein kinase, ATP binding site 276 - 298 IPR017441
domain Tyrosine-protein kinase, catalytic domain 270 - 519 IPR020635

Functions

Description
EC Number 3.6.5.2 Acting on GTP; involved in cellular and subcellular movement
Subcellular Localization
  • Golgi apparatus membrane ; Lipid-anchor ; Cytoplasmic side
  • Synapse, synaptosome
  • Postsynaptic density
  • In the GDP-bound form, associates transiently with the membranes via its myristoylated N-terminus where guanine nucleotide-exchange factor (GEF)-mediated nucleotide exchange occurs (By similarity)
  • Following nucleotide exchange, the GTP-bound form undergoes a conformational change, leading to the exposure of a myristoylated N-terminal amphipathic helix that provides stable membrane anchorage (By similarity)
PANTHER Family PTHR11711 ADP RIBOSYLATION FACTOR-RELATED
PANTHER Subfamily PTHR11711:SF357 ADP-RIBOSYLATION FACTOR 1
PANTHER Protein Class G-protein
PANTHER Pathway Category Integrin signalling pathway
Arf1
Huntington disease
ARF

10 GO annotations of cellular component

Name Definition
cell leading edge The area of a motile cell closest to the direction of movement.
cytosol The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
extracellular exosome A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
focal adhesion A cell-substrate junction that anchors the cell to the extracellular matrix and that forms a point of termination of actin filaments. In insects focal adhesion has also been referred to as hemi-adherens junction (HAJ).
Golgi membrane The lipid bilayer surrounding any of the compartments of the Golgi apparatus.
neuron projection A prolongation or process extending from a nerve cell, e.g. an axon or dendrite.
plasma membrane The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
postsynaptic density An electron dense network of proteins within and adjacent to the postsynaptic membrane of an asymmetric, neuron-neuron synapse. Its major components include neurotransmitter receptors and the proteins that spatially and functionally organize them such as anchoring and scaffolding molecules, signaling enzymes and cytoskeletal components.
protein-containing complex A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together.
sarcomere The repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs.

5 GO annotations of molecular function

Name Definition
GTP binding Binding to GTP, guanosine triphosphate.
GTPase activity Catalysis of the reaction
magnesium ion binding Binding to a magnesium (Mg) ion.
protein domain specific binding Binding to a specific domain of a protein.
RNA binding Binding to an RNA molecule or a portion thereof.

9 GO annotations of biological process

Name Definition
cellular response to virus Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a virus.
dendritic spine organization A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a dendritic spine. A dendritic spine is a specialized protrusion from a neuronal dendrite and is involved in synaptic transmission.
intracellular copper ion homeostasis A homeostatic process involved in the maintenance of a steady state level of copper ions within a cell.
intracellular protein transport The directed movement of proteins in a cell, including the movement of proteins between specific compartments or structures within a cell, such as organelles of a eukaryotic cell.
long-term synaptic depression A process that modulates synaptic plasticity such that synapses are changed resulting in the decrease in the rate, or frequency of synaptic transmission at the synapse.
mitotic cleavage furrow ingression Advancement of the mitotic cleavage furrow from the outside of the cell inward towards the center of the cell. The cleavage furrow acts as a 'purse string' which draws tight to separate daughter cells during mitotic cytokinesis and partition the cytoplasm between the two daughter cells. The furrow ingresses until a cytoplasmic bridge is formed.
regulation of Arp2/3 complex-mediated actin nucleation Any process that modulates the frequency, rate or extent of actin nucleation mediated by the Arp2/3 complex and interacting proteins.
regulation of receptor internalization Any process that modulates the frequency, rate or extent of receptor internalization.
vesicle-mediated transport A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.

49 homologous proteins in AiPD

UniProt AC Gene Name Protein Name Species Evidence Code
Q2KJ96 ARL5A ADP-ribosylation factor-like protein 5A Bos taurus (Bovine) SS
P84081 ARF2 ADP-ribosylation factor 2 Bos taurus (Bovine) SS
Q3SZF2 ARF4 ADP-ribosylation factor 4 Bos taurus (Bovine) SS
Q0VC18 ARL4D ADP-ribosylation factor-like protein 4D Bos taurus (Bovine) PR
P84080 ARF1 ADP-ribosylation factor 1 Bos taurus (Bovine) SS
Q5E9I6 ARF3 ADP-ribosylation factor 3 Bos taurus (Bovine) SS
P49702 ARF5 ADP-ribosylation factor 5 Gallus gallus (Chicken) SS
P40945 Arf4 ADP ribosylation factor 4 Drosophila melanogaster (Fruit fly) SS
P61209 Arf1 ADP-ribosylation factor 1 Drosophila melanogaster (Fruit fly) SS
A6NH57 ARL5C Putative ADP-ribosylation factor-like protein 5C Homo sapiens (Human) SS
P18085 ARF4 ADP-ribosylation factor 4 Homo sapiens (Human) EV
P49703 ARL4D ADP-ribosylation factor-like protein 4D Homo sapiens (Human) PR
P84085 ARF5 ADP-ribosylation factor 5 Homo sapiens (Human) EV
Q8N4G2 ARL14 ADP-ribosylation factor-like protein 14 Homo sapiens (Human) SS
Q969Q4 ARL11 ADP-ribosylation factor-like protein 11 Homo sapiens (Human) PR
Q96KC2 ARL5B ADP-ribosylation factor-like protein 5B Homo sapiens (Human) SS
P62330 ARF6 ADP-ribosylation factor 6 Homo sapiens (Human) EV
Q8IVW1 ARL17A ADP-ribosylation factor-like protein 17 Homo sapiens (Human) SS
Q9H0F7 ARL6 ADP-ribosylation factor-like protein 6 Homo sapiens (Human) SS
P40616 ARL1 ADP-ribosylation factor-like protein 1 Homo sapiens (Human) SS
P61204 ARF3 ADP-ribosylation factor 3 Homo sapiens (Human) EV
Q9Y689 ARL5A ADP-ribosylation factor-like protein 5A Homo sapiens (Human) SS
P49076 ARF1 ADP-ribosylation factor Zea mays (Maize) SS
P84084 Arf5 ADP-ribosylation factor 5 Mus musculus (Mouse) SS
P61750 Arf4 ADP-ribosylation factor 4 Mus musculus (Mouse) SS
Q99PE9 Arl4d ADP-ribosylation factor-like protein 4D Mus musculus (Mouse) PR
Q6P068 Arl5c ADP-ribosylation factor-like protein 5C Mus musculus (Mouse) SS
Q80ZU0 Arl5a ADP-ribosylation factor-like protein 5A Mus musculus (Mouse) SS
P61205 Arf3 ADP-ribosylation factor 3 Mus musculus (Mouse) SS
Q9D4P0 Arl5b ADP-ribosylation factor-like protein 5B Mus musculus (Mouse) SS
Q8BSL7 Arf2 ADP-ribosylation factor 2 Mus musculus (Mouse) SS
P84078 Arf1 ADP-ribosylation factor 1 Mus musculus (Mouse) SS
P51824 ADP-ribosylation factor 1 Solanum tuberosum (Potato) SS
P84082 Arf2 ADP-ribosylation factor 2 Rattus norvegicus (Rat) SS
P51646 Arl5a ADP-ribosylation factor-like protein 5A Rattus norvegicus (Rat) SS
P84083 Arf5 ADP-ribosylation factor 5 Rattus norvegicus (Rat) SS
P36407 Trim23 E3 ubiquitin-protein ligase TRIM23 Rattus norvegicus (Rat) SS
P61751 Arf4 ADP-ribosylation factor 4 Rattus norvegicus (Rat) SS
P61206 Arf3 ADP-ribosylation factor 3 Rattus norvegicus (Rat) SS
P84079 Arf1 ADP-ribosylation factor 1 Rattus norvegicus (Rat) SS
P51823 ARF ADP-ribosylation factor 2 Oryza sativa subsp. japonica (Rice) SS
Q06396 Os01g0813400 ADP-ribosylation factor 1 Oryza sativa subsp. japonica (Rice) SS
P34212 arl-5 ADP-ribosylation factor-like protein 5 Caenorhabditis elegans SS
Q10943 arf-1.2 ADP-ribosylation factor 1-like 2 Caenorhabditis elegans SS
P40940 ARF3 ADP-ribosylation factor 3 Arabidopsis thaliana (Mouse-ear cress) SS
P0DH91 ARF2-B ADP-ribosylation factor 2-B Arabidopsis thaliana (Mouse-ear cress) SS
P36397 ARF1 ADP-ribosylation factor 1 Arabidopsis thaliana (Mouse-ear cress) SS
Q9LQC8 ARF2-A ADP-ribosylation factor 2-A Arabidopsis thaliana (Mouse-ear cress) SS
Q5M9P8 arl6 ADP-ribosylation factor-like protein 6 Danio rerio (Zebrafish) (Brachydanio rerio) SS
10 20 30 40 50 60
MGNIFANLFK GLFGKKEMRI LMVGLDAAGK TTILYKLKLG EIVTTIPTIG FNVETVEYKN
70 80 90 100 110 120
ISFTVWDVGG QDKIRPLWRH YFQNTQGLIF VVDSNDRERV NEAREELMRM LAEDELRDAV
130 140 150 160 170 180
LLVFANKQDL PNAMNAAEIT DKLGLHSLRH RNWYIQATCA TSGDGLYEGL DWLSNQLRNQ
K