8D9W | pdb_00008d9w

beta-Arf1 homodimeric interface within AP-1, Arf1, Nef, MHC-I lattice on narrow tubes

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
E [auth F]SCOP2B SuperfamilyRas-like P-loop GTPases 8089848 3002022 SCOP2B (2022-06-29)
K [auth I]SCOP2B SuperfamilyRas-like P-loop GTPases 8089848 3002022 SCOP2B (2022-06-29)
J [auth e]SCOP2B SuperfamilySNARE-like 8082711 3001113 SCOP2B (2022-06-29)
P [auth f]SCOP2B SuperfamilySNARE-like 8082711 3001113 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
A [auth N]LNT_Ne8d9wN1 A: alpha bundlesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: LNT_NECOD (develop294)
Q [auth d]Polyketide_cyc2e8d9wd1 A: alpha bundlesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Polyketide_cyc2ECOD (develop294)
C [auth B]TRPM2e8d9wB01 A: alpha bundlesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: TRPM2ECOD (develop294)
D [auth M]LNT_Ne8d9wM1 A: alpha bundlesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: LNT_NECOD (develop294)
I [auth X]LNT_Ne8d9wX1 A: alpha bundlesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: LNT_NECOD (develop294)
O [auth Z]Polyketide_cyc2e8d9wZ1 A: alpha bundlesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Polyketide_cyc2ECOD (develop294)
T [auth a]LNT_Ne8d9wa1 A: alpha bundlesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: LNT_NECOD (develop294)
E [auth F]LNT_Ne8d9wF1 A: alpha bundlesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: LNT_NECOD (develop294)
K [auth I]Polyketide_cyc2e8d9wI1 A: alpha bundlesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Polyketide_cyc2ECOD (develop294)
J [auth e]LNT_Ne8d9we1 A: alpha bundlesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: LNT_NECOD (develop294)
P [auth f]Polyketide_cyc2e8d9wf1 A: alpha bundlesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Polyketide_cyc2ECOD (develop294)
G [auth K]Polyketide_cyc2e8d9wK1 A: alpha bundlesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Polyketide_cyc2ECOD (develop294)
M [auth O]LNT_Ne8d9wO1 A: alpha bundlesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: LNT_NECOD (develop294)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
C [auth B],
F [auth A],
L [auth D],
S [auth E]		PF01217Clathrin adaptor complex small chain (Clat_adaptor_s)Clathrin adaptor complex small chainDomain
C [auth B],
F [auth A],
L [auth D],
S [auth E]		PF00928Adaptor complexes medium subunit family (Adap_comp_sub)Adaptor complexes medium subunit family- Family
D [auth M],
I [auth X],
O [auth Z],
T [auth a]		PF01217Clathrin adaptor complex small chain (Clat_adaptor_s)Clathrin adaptor complex small chainDomain
D [auth M],
I [auth X],
O [auth Z],
T [auth a]		PF00928Adaptor complexes medium subunit family (Adap_comp_sub)Adaptor complexes medium subunit family- Family
E [auth F],
K [auth I]		PF00025ADP-ribosylation factor family (Arf)ADP-ribosylation factor familyPfam combines a number of different Prosite families together Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth N],
H [auth U],
N [auth V],
Q [auth d]		Protein Nef
B [auth Y],
R [auth j]		HLA class I histocompatibility antigen, A alpha chain
C [auth B],
F [auth A],
L [auth D],
S [auth E]		AP-1 complex subunit beta-1
D [auth M],
I [auth X],
O [auth Z],
T [auth a]		AP-1 complex subunit mu-1
E [auth F],
K [auth I]		ADP-ribosylation factor 1
J [auth e],
P [auth f]		AP-1 complex subunit sigma-3
G [auth K],
M [auth O]		AP-1 complex subunit gamma-1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A [auth N],
H [auth U],
N [auth V],
Q [auth d]		IPR001558HIV negative factor NefFamily
A [auth N],
H [auth U],
N [auth V],
Q [auth d]		IPR027481HIV-1 Nef protein, core domain superfamilyHomologous Superfamily
A [auth N],
H [auth U],
N [auth V],
Q [auth d]		IPR027480HIV-1 Nef protein, anchor domain superfamilyHomologous Superfamily
B [auth Y],
R [auth j]		IPR036179Immunoglobulin-like domain superfamilyHomologous Superfamily
B [auth Y],
R [auth j]		IPR010579MHC class I, alpha chain, C-terminalDomain
B [auth Y],
R [auth j]		IPR011162MHC classes I/II-like antigen recognition proteinHomologous Superfamily
B [auth Y],
R [auth j]		IPR001039MHC class I alpha chain, alpha1 alpha2 domainsDomain
B [auth Y],
R [auth j]		IPR003006Immunoglobulin/major histocompatibility complex, conserved siteConserved Site
B [auth Y],
R [auth j]		IPR013783Immunoglobulin-like foldHomologous Superfamily
B [auth Y],
R [auth j]		IPR007110Immunoglobulin-like domainDomain
B [auth Y],
R [auth j]		IPR050208Antigen-presenting and immune regulatory MHC class I-relatedFamily
B [auth Y],
R [auth j]		IPR003597Immunoglobulin C1-setDomain
B [auth Y],
R [auth j]		IPR011161MHC class I-like antigen recognition-likeDomain
B [auth Y],
R [auth j]		IPR037055MHC class I-like antigen recognition-like superfamilyHomologous Superfamily
C [auth B],
F [auth A],
L [auth D],
S [auth E]		IPR016024Armadillo-type foldHomologous Superfamily
C [auth B],
F [auth A],
L [auth D],
S [auth E]		IPR013037Clathrin adaptor, beta-adaptin, appendage, Ig-like subdomainHomologous Superfamily
C [auth B],
F [auth A],
L [auth D],
S [auth E]		IPR000225ArmadilloRepeat
C [auth B],
F [auth A],
L [auth D],
S [auth E]		IPR026739AP complex subunit betaFamily
C [auth B],
F [auth A],
L [auth D],
S [auth E]		IPR011989Armadillo-like helicalHomologous Superfamily
C [auth B],
F [auth A],
L [auth D],
S [auth E]		IPR012295TBP domain superfamilyHomologous Superfamily
C [auth B],
F [auth A],
L [auth D],
S [auth E]		IPR002553Clathrin/coatomer adaptor, adaptin-like, N-terminalDomain
C [auth B],
F [auth A],
L [auth D],
S [auth E]		IPR015151Beta-adaptin appendage, C-terminal subdomainDomain
C [auth B],
F [auth A],
L [auth D],
S [auth E]		IPR013041Clathrin adaptor, appendage, Ig-like subdomain superfamilyHomologous Superfamily
C [auth B],
F [auth A],
L [auth D],
S [auth E]		IPR008152Clathrin adaptor, alpha/beta/gamma-adaptin, appendage, Ig-like subdomainDomain
C [auth B],
F [auth A],
L [auth D],
S [auth E]		IPR009028Coatomer/calthrin adaptor appendage, C-terminal subdomainHomologous Superfamily
C [auth B],
F [auth A],
L [auth D],
S [auth E]		IPR016342AP-1/2/4 complex subunit betaFamily
D [auth M],
I [auth X],
O [auth Z],
T [auth a]		IPR050431Adaptor complexes medium subunitFamily
D [auth M],
I [auth X],
O [auth Z],
T [auth a]		IPR011012Longin-like domain superfamilyHomologous Superfamily
D [auth M],
I [auth X],
O [auth Z],
T [auth a]		IPR022775AP complex, mu/sigma subunitDomain
D [auth M],
I [auth X],
O [auth Z],
T [auth a]		IPR036168AP-2 complex subunit mu, C-terminal superfamilyHomologous Superfamily
D [auth M],
I [auth X],
O [auth Z],
T [auth a]		IPR028565Mu homology domainDomain
D [auth M],
I [auth X],
O [auth Z],
T [auth a]		IPR018240Clathrin adaptor, mu subunit, conserved siteConserved Site
D [auth M],
I [auth X],
O [auth Z],
T [auth a]		IPR001392Clathrin adaptor, mu subunitFamily
E [auth F],
K [auth I]		IPR045872ADP-ribosylation factor 1-5Family
E [auth F],
K [auth I]		IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
E [auth F],
K [auth I]		IPR005225Small GTP-binding domainDomain
E [auth F],
K [auth I]		IPR024156Small GTPase superfamily, ARF typeFamily
E [auth F],
K [auth I]		IPR006689Small GTPase superfamily, ARF/SAR typeFamily
J [auth e],
P [auth f]		IPR016635Adaptor protein complex, sigma subunitFamily
J [auth e],
P [auth f]		IPR011012Longin-like domain superfamilyHomologous Superfamily
J [auth e],
P [auth f]		IPR044733AP-1 complex subunit sigmaFamily
J [auth e],
P [auth f]		IPR000804Clathrin adaptor complex, small chainConserved Site
J [auth e],
P [auth f]		IPR022775AP complex, mu/sigma subunitDomain
G [auth K],
M [auth O]		IPR016024Armadillo-type foldHomologous Superfamily
G [auth K],
M [auth O]		IPR017107Adaptor protein complex AP-1, gamma subunitFamily
G [auth K],
M [auth O]		IPR011989Armadillo-like helicalHomologous Superfamily
G [auth K],
M [auth O]		IPR008153Gamma-adaptin ear (GAE) domainDomain
G [auth K],
M [auth O]		IPR002553Clathrin/coatomer adaptor, adaptin-like, N-terminalDomain
G [auth K],
M [auth O]		IPR013041Clathrin adaptor, appendage, Ig-like subdomain superfamilyHomologous Superfamily
G [auth K],
M [auth O]		IPR050840Adaptor Complexes Large SubunitFamily
G [auth K],
M [auth O]		IPR008152Clathrin adaptor, alpha/beta/gamma-adaptin, appendage, Ig-like subdomainDomain

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
B [auth Y],
R [auth j]		Pharos:  P04439
C [auth B],
F [auth A],
L [auth D],
S [auth E]		Pharos:  Q10567
E [auth F],
K [auth I]		Pharos:  P84077
J [auth e],
P [auth f]		Pharos:  Q96PC3