7WKK | pdb_00007wkk

Cryo-EM structure of the IR subunit from X. laevis NPC

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ISCOP2B SuperfamilyNup58-like 8053258 3002169 SCOP2B (2022-06-29)
L [auth K]SCOP2B SuperfamilyNup58-like 8053258 3002169 SCOP2B (2022-06-29)
V [auth i]SCOP2B SuperfamilyNup58-like 8053258 3002169 SCOP2B (2022-06-29)
Y [auth k]SCOP2B SuperfamilyNup58-like 8053258 3002169 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
BPeptidase_M2e7wkkB01 A: a/b three-layered sandwichesX: Rossmann-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Peptidase_M2ECOD (v294.1)
DPhnJe7wkkD1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PhnJECOD (v294.1)
FYTHe7wkkF1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: YTHECOD (v294.1)
Q [auth d]YTHe7wkkd1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: YTHECOD (v294.1)
S [auth f]PhnJe7wkkf1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PhnJECOD (v294.1)
AA [auth O]e7wkkO1 A: a/b three-layered sandwichesX: RNase A-likeH: Cytochrome P450T: Cytochrome P450F:ECOD (v294.1)
CA [auth o]e7wkko1 A: a/b three-layered sandwichesX: RNase A-likeH: Cytochrome P450T: Cytochrome P450F:ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A,
N [auth a]		PF11894Nuclear pore complex scaffold, nucleoporins 186/192/205 (Nup192)Nuclear pore complex scaffold, nucleoporins 186/192/205- Repeat
B,
O [auth b]		PF10487Nucleoporin Nup188, N-terminal (Nup188_N)Nucleoporin Nup188, N-terminal- Repeat
B,
O [auth b]		PF21093Nucleoporin Nup188, N-terminal subdomain III (Nup188_N-subdom_III)Nucleoporin Nup188, N-terminal subdomain III- Repeat
B,
O [auth b]		PF21094Nup188 SH3-like domain (Nup188_SH3-like)Nup188 SH3-like domainNup188 is one of the many peptides that make up the nucleoporin complex (NPC), and is found across eukaryotes [1,2]. The Nup188 subcomplex (Nic96p-Nup188p-Nup192p-Pom152p) is one of at least six that make up the NPC, and as such is symmetrically loca ...Nup188 is one of the many peptides that make up the nucleoporin complex (NPC), and is found across eukaryotes [1,2]. The Nup188 subcomplex (Nic96p-Nup188p-Nup192p-Pom152p) is one of at least six that make up the NPC, and as such is symmetrically localised on both faces of the NPC at the nuclear end, being integrally bound to the C terminus of Pom34p [3]. This protein folds into an extended stack of helices where the N-terminal forms a closed ring (subdivided into subdomains I-III in [2]) and the C-terminal forms a more regular, superhelical structure [2]. This entry represents a beta-stranded SH3-like domain inserted in subdomain III from Nup188 N-terminal region, which is a circular permutation from canonical SH3 domain [2].
Domain
C,
E,
P [auth c],
R [auth e]		PF04097Nup93/Nic96 (Nic96)Nup93/Nic96- Repeat
PF03177Non-repetitive/WGA-negative nucleoporin C-terminal (Nucleoporin_C)Non-repetitive/WGA-negative nucleoporin C-terminal- Repeat
PF08801Nup133 N terminal like (Nucleoporin_N)Nup133 N terminal like- Repeat
G,
J,
T [auth g],
W [auth j]		PF13874Nucleoporin complex subunit 54 (Nup54)Nucleoporin complex subunit 54- Coiled-coil
BA [auth N],
DA [auth n]		PF09531Nucleoporin protein Ndc1-Nup (Ndc1_Nup)Nucleoporin protein Ndc1-Nup- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A,
N [auth a]		MGC83295 protein
B,
O [auth b]		Nup188 domain-containing protein
C,
E,
P [auth c],
R [auth e]		Nuclear pore complex protein Nup93
Nup155-prov protein
G,
J,
T [auth g],
W [auth j]		Nup54
H,
K [auth L],
U [auth h],
X [auth l]		IL4I1 protein
I,
L [auth K],
V [auth i],
Y [auth k]		MGC84997 protein
AA [auth O],
CA [auth o]		Aaas-prov protein-
BA [auth N],
DA [auth n]		Nucleoporin NDC1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A,
N [auth a]		IPR021827Nucleoporin Nup186/Nup192/Nup205Family
B,
O [auth b]		IPR048883Nucleoporin Nup188, N-terminal subdomain IIIDomain
B,
O [auth b]		IPR016024Armadillo-type foldHomologous Superfamily
B,
O [auth b]		IPR044840Nucleoporin Nup188Family
B,
O [auth b]		IPR018864Nucleoporin Nup188, N-terminalDomain
C,
E,
P [auth c],
R [auth e]		IPR007231Nucleoporin interacting component Nup93/Nic96Family
IPR042537Nucleoporin, Nup155-like, C-terminal, subdomain 2Homologous Superfamily
IPR042533Nucleoporin, Nup155-like, C-terminal, subdomain 1Homologous Superfamily
IPR042538Nucleoporin, Nup155-like, C-terminal, subdomain 3Homologous Superfamily
IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
IPR014908Nucleoporin, Nup133/Nup155-like, N-terminalDomain
IPR004870Nucleoporin, Nup155-likeFamily
IPR007187Nucleoporin, Nup133/Nup155-like, C-terminalDomain
G,
J,
T [auth g],
W [auth j]		IPR025712Nucleoporin Nup54, alpha-helical domainDomain
G,
J,
T [auth g],
W [auth j]		IPR040985Nup54, C-terminal interacting domainDomain
G,
J,
T [auth g],
W [auth j]		IPR024864Nucleoporin Nup54/Nup57/Nup44Family
H,
K [auth L],
U [auth h],
X [auth l]		IPR007758Nucleoporin, NSP1-like, C-terminalDomain
H,
K [auth L],
U [auth h],
X [auth l]		IPR026010Nucleoporin NSP1/NUP62Family
I,
L [auth K],
V [auth i],
Y [auth k]		IPR024882Nucleoporin p58/p45/NUP49Family
AA [auth O],
CA [auth o]		IPR045139AladinFamily
AA [auth O],
CA [auth o]		IPR001680WD40 repeatRepeat
AA [auth O],
CA [auth o]		IPR057403Aladin, seven-bladed propellerDomain
AA [auth O],
CA [auth o]		IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
AA [auth O],
CA [auth o]		IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
BA [auth N],
DA [auth n]		IPR019049Nucleoporin protein Ndc1-NupFamily