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6CRI

Structure of the cargo bound AP-1:Arf1:tetherin-Nef stable closed trimer

Functional Information from GO Data
ChainGOidnamespacecontents
a0000139cellular_componentGolgi membrane
a0005515molecular_functionprotein binding
a0005765cellular_componentlysosomal membrane
a0005769cellular_componentearly endosome
a0005794cellular_componentGolgi apparatus
a0005829cellular_componentcytosol
a0005905cellular_componentclathrin-coated pit
a0006605biological_processprotein targeting
a0006886biological_processintracellular protein transport
a0015031biological_processprotein transport
a0016192biological_processvesicle-mediated transport
a0030117cellular_componentmembrane coat
a0030121cellular_componentAP-1 adaptor complex
a0030659cellular_componentcytoplasmic vesicle membrane
a0031410cellular_componentcytoplasmic vesicle
a0032588cellular_componenttrans-Golgi network membrane
a0035615molecular_functionclathrin-cargo adaptor activity
a0060155biological_processplatelet dense granule organization
a1903232biological_processmelanosome assembly
b0000139cellular_componentGolgi membrane
b0005515molecular_functionprotein binding
b0005765cellular_componentlysosomal membrane
b0005769cellular_componentearly endosome
b0005794cellular_componentGolgi apparatus
b0005829cellular_componentcytosol
b0005905cellular_componentclathrin-coated pit
b0006605biological_processprotein targeting
b0006886biological_processintracellular protein transport
b0015031biological_processprotein transport
b0016192biological_processvesicle-mediated transport
b0030117cellular_componentmembrane coat
b0030121cellular_componentAP-1 adaptor complex
b0030659cellular_componentcytoplasmic vesicle membrane
b0031410cellular_componentcytoplasmic vesicle
b0032588cellular_componenttrans-Golgi network membrane
b0035615molecular_functionclathrin-cargo adaptor activity
b0060155biological_processplatelet dense granule organization
b1903232biological_processmelanosome assembly
B0006886biological_processintracellular protein transport
B0015031biological_processprotein transport
B0016192biological_processvesicle-mediated transport
B0030117cellular_componentmembrane coat
B0030276molecular_functionclathrin binding
c0005525molecular_functionGTP binding
C0000139cellular_componentGolgi membrane
C0000166molecular_functionnucleotide binding
C0000287molecular_functionmagnesium ion binding
C0002090biological_processregulation of receptor internalization
C0003723molecular_functionRNA binding
C0003924molecular_functionGTPase activity
C0003925molecular_functionG protein activity
C0005515molecular_functionprotein binding
C0005525molecular_functionGTP binding
C0005737cellular_componentcytoplasm
C0005794cellular_componentGolgi apparatus
C0005829cellular_componentcytosol
C0005886cellular_componentplasma membrane
C0005925cellular_componentfocal adhesion
C0006878biological_processintracellular copper ion homeostasis
C0006886biological_processintracellular protein transport
C0012505cellular_componentendomembrane system
C0014069cellular_componentpostsynaptic density
C0015031biological_processprotein transport
C0016192biological_processvesicle-mediated transport
C0016787molecular_functionhydrolase activity
C0019904molecular_functionprotein domain specific binding
C0030017cellular_componentsarcomere
C0031252cellular_componentcell leading edge
C0032991cellular_componentprotein-containing complex
C0034315biological_processregulation of Arp2/3 complex-mediated actin nucleation
C0043005cellular_componentneuron projection
C0045202cellular_componentsynapse
C0060292biological_processlong-term synaptic depression
C0070062cellular_componentextracellular exosome
C0097061biological_processdendritic spine organization
C0098586biological_processcellular response to virus
C1990386biological_processmitotic cleavage furrow ingression
d0005525molecular_functionGTP binding
G0006886biological_processintracellular protein transport
G0016192biological_processvesicle-mediated transport
G0030117cellular_componentmembrane coat
H0000139cellular_componentGolgi membrane
H0000166molecular_functionnucleotide binding
H0000287molecular_functionmagnesium ion binding
H0002090biological_processregulation of receptor internalization
H0003723molecular_functionRNA binding
H0003924molecular_functionGTPase activity
H0003925molecular_functionG protein activity
H0005515molecular_functionprotein binding
H0005525molecular_functionGTP binding
H0005737cellular_componentcytoplasm
H0005794cellular_componentGolgi apparatus
H0005829cellular_componentcytosol
H0005886cellular_componentplasma membrane
H0005925cellular_componentfocal adhesion
H0006878biological_processintracellular copper ion homeostasis
H0006886biological_processintracellular protein transport
H0012505cellular_componentendomembrane system
H0014069cellular_componentpostsynaptic density
H0015031biological_processprotein transport
H0016192biological_processvesicle-mediated transport
H0016787molecular_functionhydrolase activity
H0019904molecular_functionprotein domain specific binding
H0030017cellular_componentsarcomere
H0031252cellular_componentcell leading edge
H0032991cellular_componentprotein-containing complex
H0034315biological_processregulation of Arp2/3 complex-mediated actin nucleation
H0043005cellular_componentneuron projection
H0045202cellular_componentsynapse
H0060292biological_processlong-term synaptic depression
H0070062cellular_componentextracellular exosome
H0097061biological_processdendritic spine organization
H0098586biological_processcellular response to virus
H1990386biological_processmitotic cleavage furrow ingression
I0006886biological_processintracellular protein transport
I0015031biological_processprotein transport
I0016192biological_processvesicle-mediated transport
I0030117cellular_componentmembrane coat
I0030276molecular_functionclathrin binding
J0006886biological_processintracellular protein transport
J0015031biological_processprotein transport
J0016192biological_processvesicle-mediated transport
J0030117cellular_componentmembrane coat
J0030276molecular_functionclathrin binding
K0000139cellular_componentGolgi membrane
K0000166molecular_functionnucleotide binding
K0000287molecular_functionmagnesium ion binding
K0002090biological_processregulation of receptor internalization
K0003723molecular_functionRNA binding
K0003924molecular_functionGTPase activity
K0003925molecular_functionG protein activity
K0005515molecular_functionprotein binding
K0005525molecular_functionGTP binding
K0005737cellular_componentcytoplasm
K0005794cellular_componentGolgi apparatus
K0005829cellular_componentcytosol
K0005886cellular_componentplasma membrane
K0005925cellular_componentfocal adhesion
K0006878biological_processintracellular copper ion homeostasis
K0006886biological_processintracellular protein transport
K0012505cellular_componentendomembrane system
K0014069cellular_componentpostsynaptic density
K0015031biological_processprotein transport
K0016192biological_processvesicle-mediated transport
K0016787molecular_functionhydrolase activity
K0019904molecular_functionprotein domain specific binding
K0030017cellular_componentsarcomere
K0031252cellular_componentcell leading edge
K0032991cellular_componentprotein-containing complex
K0034315biological_processregulation of Arp2/3 complex-mediated actin nucleation
K0043005cellular_componentneuron projection
K0045202cellular_componentsynapse
K0060292biological_processlong-term synaptic depression
K0070062cellular_componentextracellular exosome
K0097061biological_processdendritic spine organization
K0098586biological_processcellular response to virus
K1990386biological_processmitotic cleavage furrow ingression
L0000139cellular_componentGolgi membrane
L0000166molecular_functionnucleotide binding
L0000287molecular_functionmagnesium ion binding
L0002090biological_processregulation of receptor internalization
L0003723molecular_functionRNA binding
L0003924molecular_functionGTPase activity
L0003925molecular_functionG protein activity
L0005515molecular_functionprotein binding
L0005525molecular_functionGTP binding
L0005737cellular_componentcytoplasm
L0005794cellular_componentGolgi apparatus
L0005829cellular_componentcytosol
L0005886cellular_componentplasma membrane
L0005925cellular_componentfocal adhesion
L0006878biological_processintracellular copper ion homeostasis
L0006886biological_processintracellular protein transport
L0012505cellular_componentendomembrane system
L0014069cellular_componentpostsynaptic density
L0015031biological_processprotein transport
L0016192biological_processvesicle-mediated transport
L0016787molecular_functionhydrolase activity
L0019904molecular_functionprotein domain specific binding
L0030017cellular_componentsarcomere
L0031252cellular_componentcell leading edge
L0032991cellular_componentprotein-containing complex
L0034315biological_processregulation of Arp2/3 complex-mediated actin nucleation
L0043005cellular_componentneuron projection
L0045202cellular_componentsynapse
L0060292biological_processlong-term synaptic depression
L0070062cellular_componentextracellular exosome
L0097061biological_processdendritic spine organization
L0098586biological_processcellular response to virus
L1990386biological_processmitotic cleavage furrow ingression
M0005515molecular_functionprotein binding
M0005765cellular_componentlysosomal membrane
M0005769cellular_componentearly endosome
M0005794cellular_componentGolgi apparatus
M0005802cellular_componenttrans-Golgi network
M0005829cellular_componentcytosol
M0006886biological_processintracellular protein transport
M0006896biological_processGolgi to vacuole transport
M0015031biological_processprotein transport
M0016192biological_processvesicle-mediated transport
M0030121cellular_componentAP-1 adaptor complex
M0030131cellular_componentclathrin adaptor complex
M0030665cellular_componentclathrin-coated vesicle membrane
M0031410cellular_componentcytoplasmic vesicle
M0032438biological_processmelanosome organization
M0032588cellular_componenttrans-Golgi network membrane
M0035615molecular_functionclathrin-cargo adaptor activity
M0035646biological_processendosome to melanosome transport
M0045202cellular_componentsynapse
M0060155biological_processplatelet dense granule organization
M1903232biological_processmelanosome assembly
N0005525molecular_functionGTP binding
Q0006886biological_processintracellular protein transport
Q0016192biological_processvesicle-mediated transport
Q0030117cellular_componentmembrane coat
R0006886biological_processintracellular protein transport
R0016192biological_processvesicle-mediated transport
R0030117cellular_componentmembrane coat
S0000139cellular_componentGolgi membrane
S0005515molecular_functionprotein binding
S0005765cellular_componentlysosomal membrane
S0005769cellular_componentearly endosome
S0005794cellular_componentGolgi apparatus
S0005829cellular_componentcytosol
S0005905cellular_componentclathrin-coated pit
S0006605biological_processprotein targeting
S0006886biological_processintracellular protein transport
S0015031biological_processprotein transport
S0016192biological_processvesicle-mediated transport
S0030117cellular_componentmembrane coat
S0030121cellular_componentAP-1 adaptor complex
S0030659cellular_componentcytoplasmic vesicle membrane
S0031410cellular_componentcytoplasmic vesicle
S0032588cellular_componenttrans-Golgi network membrane
S0035615molecular_functionclathrin-cargo adaptor activity
S0060155biological_processplatelet dense granule organization
S1903232biological_processmelanosome assembly
T0005525molecular_functionGTP binding
U0000139cellular_componentGolgi membrane
U0000166molecular_functionnucleotide binding
U0000287molecular_functionmagnesium ion binding
U0002090biological_processregulation of receptor internalization
U0003723molecular_functionRNA binding
U0003924molecular_functionGTPase activity
U0003925molecular_functionG protein activity
U0005515molecular_functionprotein binding
U0005525molecular_functionGTP binding
U0005737cellular_componentcytoplasm
U0005794cellular_componentGolgi apparatus
U0005829cellular_componentcytosol
U0005886cellular_componentplasma membrane
U0005925cellular_componentfocal adhesion
U0006878biological_processintracellular copper ion homeostasis
U0006886biological_processintracellular protein transport
U0012505cellular_componentendomembrane system
U0014069cellular_componentpostsynaptic density
U0015031biological_processprotein transport
U0016192biological_processvesicle-mediated transport
U0016787molecular_functionhydrolase activity
U0019904molecular_functionprotein domain specific binding
U0030017cellular_componentsarcomere
U0031252cellular_componentcell leading edge
U0032991cellular_componentprotein-containing complex
U0034315biological_processregulation of Arp2/3 complex-mediated actin nucleation
U0043005cellular_componentneuron projection
U0045202cellular_componentsynapse
U0060292biological_processlong-term synaptic depression
U0070062cellular_componentextracellular exosome
U0097061biological_processdendritic spine organization
U0098586biological_processcellular response to virus
U1990386biological_processmitotic cleavage furrow ingression
V0000139cellular_componentGolgi membrane
V0000166molecular_functionnucleotide binding
V0000287molecular_functionmagnesium ion binding
V0002090biological_processregulation of receptor internalization
V0003723molecular_functionRNA binding
V0003924molecular_functionGTPase activity
V0003925molecular_functionG protein activity
V0005515molecular_functionprotein binding
V0005525molecular_functionGTP binding
V0005737cellular_componentcytoplasm
V0005794cellular_componentGolgi apparatus
V0005829cellular_componentcytosol
V0005886cellular_componentplasma membrane
V0005925cellular_componentfocal adhesion
V0006878biological_processintracellular copper ion homeostasis
V0006886biological_processintracellular protein transport
V0012505cellular_componentendomembrane system
V0014069cellular_componentpostsynaptic density
V0015031biological_processprotein transport
V0016192biological_processvesicle-mediated transport
V0016787molecular_functionhydrolase activity
V0019904molecular_functionprotein domain specific binding
V0030017cellular_componentsarcomere
V0031252cellular_componentcell leading edge
V0032991cellular_componentprotein-containing complex
V0034315biological_processregulation of Arp2/3 complex-mediated actin nucleation
V0043005cellular_componentneuron projection
V0045202cellular_componentsynapse
V0060292biological_processlong-term synaptic depression
V0070062cellular_componentextracellular exosome
V0097061biological_processdendritic spine organization
V0098586biological_processcellular response to virus
V1990386biological_processmitotic cleavage furrow ingression
W0005515molecular_functionprotein binding
W0005765cellular_componentlysosomal membrane
W0005769cellular_componentearly endosome
W0005794cellular_componentGolgi apparatus
W0005802cellular_componenttrans-Golgi network
W0005829cellular_componentcytosol
W0006886biological_processintracellular protein transport
W0006896biological_processGolgi to vacuole transport
W0015031biological_processprotein transport
W0016192biological_processvesicle-mediated transport
W0030121cellular_componentAP-1 adaptor complex
W0030131cellular_componentclathrin adaptor complex
W0030665cellular_componentclathrin-coated vesicle membrane
W0031410cellular_componentcytoplasmic vesicle
W0032438biological_processmelanosome organization
W0032588cellular_componenttrans-Golgi network membrane
W0035615molecular_functionclathrin-cargo adaptor activity
W0035646biological_processendosome to melanosome transport
W0045202cellular_componentsynapse
W0060155biological_processplatelet dense granule organization
W1903232biological_processmelanosome assembly
X0005515molecular_functionprotein binding
X0005765cellular_componentlysosomal membrane
X0005769cellular_componentearly endosome
X0005794cellular_componentGolgi apparatus
X0005802cellular_componenttrans-Golgi network
X0005829cellular_componentcytosol
X0006886biological_processintracellular protein transport
X0006896biological_processGolgi to vacuole transport
X0015031biological_processprotein transport
X0016192biological_processvesicle-mediated transport
X0030121cellular_componentAP-1 adaptor complex
X0030131cellular_componentclathrin adaptor complex
X0030665cellular_componentclathrin-coated vesicle membrane
X0031410cellular_componentcytoplasmic vesicle
X0032438biological_processmelanosome organization
X0032588cellular_componenttrans-Golgi network membrane
X0035615molecular_functionclathrin-cargo adaptor activity
X0035646biological_processendosome to melanosome transport
X0045202cellular_componentsynapse
X0060155biological_processplatelet dense granule organization
X1903232biological_processmelanosome assembly
Y0005525molecular_functionGTP binding
Z0005525molecular_functionGTP binding
Functional Information from PDB Data
site_idAC1
Number of Residues17
Detailsbinding site for residue GTP C 1001
ChainResidue
CASP26
CPRO47
CTHR48
CGLY69
CLYS127
CASP129
CALA160
CTHR161
CMG1002
CALA27
CALA28
CGLY29
CLYS30
CTHR31
CTHR32
CTHR45
CILE46

site_idAC2
Number of Residues3
Detailsbinding site for residue MG C 1002
ChainResidue
CTHR31
CTHR48
CGTP1001

site_idAC3
Number of Residues18
Detailsbinding site for residue GTP H 1001
ChainResidue
HALA27
HALA28
HGLY29
HLYS30
HTHR31
HTHR32
HTHR45
HILE46
HPRO47
HTHR48
HGLY69
HLEU71
HASN126
HLYS127
HASP129
HALA160
HTHR161
HMG1002

site_idAC4
Number of Residues3
Detailsbinding site for residue MG H 1002
ChainResidue
HTHR31
HTHR48
HGTP1001

site_idAC5
Number of Residues17
Detailsbinding site for residue GTP K 1001
ChainResidue
KASP26
KALA27
KALA28
KGLY29
KLYS30
KTHR31
KTHR32
KTHR45
KILE46
KPRO47
KTHR48
KGLY69
KLYS127
KASP129
KALA160
KTHR161
KMG1002

site_idAC6
Number of Residues3
Detailsbinding site for residue MG K 1002
ChainResidue
KTHR31
KTHR48
KGTP1001

site_idAC7
Number of Residues18
Detailsbinding site for residue GTP U 1001
ChainResidue
UALA27
UALA28
UGLY29
ULYS30
UTHR31
UTHR32
UTHR45
UILE46
UPRO47
UTHR48
UGLY69
ULEU71
UASN126
ULYS127
UASP129
UALA160
UTHR161
UMG1002

site_idAC8
Number of Residues3
Detailsbinding site for residue MG U 1002
ChainResidue
UTHR31
UTHR48
UGTP1001

site_idAC9
Number of Residues17
Detailsbinding site for residue GTP L 1001
ChainResidue
LASP26
LALA27
LALA28
LGLY29
LLYS30
LTHR31
LTHR32
LTHR45
LILE46
LPRO47
LTHR48
LGLY69
LLYS127
LASP129
LALA160
LTHR161
LMG1002

site_idAD1
Number of Residues3
Detailsbinding site for residue MG L 1002
ChainResidue
LTHR31
LTHR48
LGTP1001

site_idAD2
Number of Residues18
Detailsbinding site for residue GTP V 1001
ChainResidue
VALA27
VALA28
VGLY29
VLYS30
VTHR31
VTHR32
VTHR45
VILE46
VPRO47
VTHR48
VGLY69
VLEU71
VASN126
VLYS127
VASP129
VALA160
VTHR161
VMG1002

site_idAD3
Number of Residues3
Detailsbinding site for residue MG V 1002
ChainResidue
VTHR31
VTHR48
VGTP1001

Functional Information from PROSITE/UniProt
site_idPS00989
Number of Residues11
DetailsCLAT_ADAPTOR_S Clathrin adaptor complexes small chain signature. LVYKryasLYF
ChainResidueDetails
SLEU57-PHE67

site_idPS00990
Number of Residues21
DetailsCLAT_ADAPTOR_M_1 Clathrin adaptor complexes medium chain signature 1. VSWRse.GikYrkNeVFLDVIE
ChainResidueDetails
MVAL157-GLU177

site_idPS00991
Number of Residues15
DetailsCLAT_ADAPTOR_M_2 Clathrin adaptor complexes medium chain signature 2. IsFIPPdGeFeLmsY
ChainResidueDetails
MILE253-TYR267

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI7
Number of Residues3
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI8
Number of Residues3
DetailsModified residue: {"description":"3'-nitrotyrosine","evidences":[{"source":"UniProtKB","id":"O35643","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

site_idSWS_FT_FI9
Number of Residues48
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"7990966","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1HUR","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI10
Number of Residues18
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"14690595","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"15308674","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"7990966","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"JUL-2010","submissionDatabase":"PDB data bank","title":"Crystal structure of ARFGAP1-ARF1 fusion protein.","authoringGroup":["Structural genomics consortium (SGC)."]}},{"source":"PDB","id":"1HUR","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1RE0","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1U81","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3O47","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI11
Number of Residues6
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"15308674","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"7990966","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"JUL-2010","submissionDatabase":"PDB data bank","title":"Crystal structure of ARFGAP1-ARF1 fusion protein.","authoringGroup":["Structural genomics consortium (SGC)."]}},{"source":"PDB","id":"1HUR","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1RE0","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3O47","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI12
Number of Residues759
DetailsDomain: {"description":"MHD","evidences":[{"source":"PROSITE-ProRule","id":"PRU00404","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI13
Number of Residues3
DetailsModified residue: {"description":"N-acetylserine","evidences":[{"source":"UniProtKB","id":"Q9BXS5","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

site_idSWS_FT_FI14
Number of Residues6
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"17242355","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"21183079","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI15
Number of Residues3
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"Q32Q06","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

250359

PDB entries from 2026-03-11

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