7VOP | pdb_00007vop

Cryo-EM structure of Xenopus laevis nuclear pore complex cytoplasmic ring subunit


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
FA [auth f]SCOP2B SuperfamilyNup62-like 8053261 3002170 SCOP2B (2022-06-29)
CA [auth c]SCOP2B SuperfamilyNup62-like 8053261 3002170 SCOP2B (2022-06-29)
JSCOP2B SuperfamilyCoat and nuclear envelope proteins 8105019 3002276 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyCoat and nuclear envelope proteins 8105019 3002276 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
RNucleoporin_Ne7vopR2 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: Nucleoporin_NECOD (1.6)
RNucleoporin_C_Ce7vopR1 A: alpha superhelicesX: Repetitive alpha hairpinsH: Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains (From Topology)T: Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domainsF: Nucleoporin_C_CECOD (1.6)
INucleoporin_Ne7vopI2 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: Nucleoporin_NECOD (1.6)
INucleoporin_C_Ce7vopI1 A: alpha superhelicesX: Repetitive alpha hairpinsH: Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains (From Topology)T: Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domainsF: Nucleoporin_C_CECOD (1.6)
PANAPC4_WD40_4e7vopP1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_4ECOD (1.6)
GANAPC4_WD40_4e7vopG1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_4ECOD (1.6)
ONup96e7vopO1 A: alpha superhelicesX: Repetitive alpha hairpinsH: Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain (From Topology)T: Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domainF: Nup96ECOD (1.6)
FNup96e7vopF1 A: alpha superhelicesX: Repetitive alpha hairpinsH: Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain (From Topology)T: Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domainF: Nup96ECOD (1.6)
NANAPC4_WD40_10e7vopN1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_10ECOD (1.6)
EANAPC4_WD40_10e7vopE1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_10ECOD (1.6)
LANAPC4_WD40_6e7vopL1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_6ECOD (1.6)
CANAPC4_WD40_6e7vopC1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_6ECOD (1.6)
UNic96e7vopU1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: Nic96ECOD (1.6)
JNucleopor_Nup85e7vopJ1 A: alpha superhelicesX: Repetitive alpha hairpinsH: Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain (From Topology)T: Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domainF: Nucleopor_Nup85ECOD (1.6)
ANucleopor_Nup85e7vopA1 A: alpha superhelicesX: Repetitive alpha hairpinsH: Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain (From Topology)T: Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domainF: Nucleopor_Nup85ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
I, R
PF08801Nup133 N terminal like (Nucleoporin_N)Nup133 N terminal like- Repeat
H, Q
PF04121Nuclear pore protein 84 / 107 (Nup84_Nup100)Nuclear pore protein 84 / 107- Family
G, P
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
F, O
PF12110Nuclear protein 96 (Nup96)Nuclear protein 96Nup96 (often known by the name of its yeast homolog Nup145C) is part of the Nup84 heptameric complex in the nuclear pore complex. Nup96 complexes with Sec13 in the middle of the heptamer. The function of the heptamer is to coat the curvature of the n ...Nup96 (often known by the name of its yeast homolog Nup145C) is part of the Nup84 heptameric complex in the nuclear pore complex. Nup96 complexes with Sec13 in the middle of the heptamer. The function of the heptamer is to coat the curvature of the nuclear pore complex between the inner and outer nuclear membranes. Nup96 is predicted to be an alpha helical solenoid. The interaction between Nup96 and Sec13 is the point of curvature in the heptameric complex. [1] [2]
Domain
E, N
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
D, M
PF11715Nucleoporin Nup120/160, beta-propeller domain (Beta-prop_Nup120_160)Nucleoporin Nup120/160, beta-propeller domain- Repeat
C, L
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
B, K
PF10168Nuclear pore component (Nup88)Nuclear pore component- Repeat
B, K
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
PF04097Nup93/Nic96 (Nic96)Nup93/Nic96- Repeat
S, T
PF11894Nuclear pore complex scaffold, nucleoporins 186/192/205 (Nup192)Nuclear pore complex scaffold, nucleoporins 186/192/205- Repeat
A, J
PF07575Nup85 Nucleoporin (Nucleopor_Nup85)Nup85 Nucleoporin- Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
I, R
outer Nup133
H, Q
Nuclear pore complex protein
G, P
GATOR complex protein SEC13
F, O
Nuclear pore complex protein Nup96
E, N
MGC83926 protein- -
D, M
Nucleoporin 160kDa-
C, L
Nucleoporin SEH1-A
B, K
MGC154553 protein- -
CA [auth c],
FA [auth f]
IL4I1 protein
BA [auth b],
DA [auth d]
Nup88A protein
AA [auth a],
EA [auth e]
Nucleoporin CAN
V, W, X, Y, Z
Nup358
Nuclear pore complex protein Nup93
S, T
MGC83295 protein
A, J
Nuclear pore complex protein Nup85

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
I, R
IPR014908Nucleoporin, Nup133/Nup155-like, N-terminalDomain
I, R
IPR037624Nuclear pore complex protein Nup133-likeFamily
I, R
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
H, Q
IPR007252Nuclear pore protein 84/107Family
G, P
IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
G, P
IPR037363Sec13/Seh1 familyFamily
G, P
IPR001680WD40 repeatRepeat
G, P
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
F, O
IPR036903Nuclear pore complex protein Nup98-Nup96-like, autopeptidase S59 domain superfamilyHomologous Superfamily
F, O
IPR025574Nucleoporin FG repeatRepeat
F, O
IPR007230Nuclear pore complex protein Nup98-Nup96-like, autopeptidase S59 domainDomain
F, O
IPR037665Nucleoporin peptidase S59-likeFamily
F, O
IPR021967Nuclear pore complex protein NUP96, C-terminal domainDomain
E, N
IPR037626Nucleoporin Nup37Family
E, N
IPR001680WD40 repeatRepeat
E, N
IPR019775WD40 repeat, conserved siteConserved Site
E, N
IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
E, N
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
D, M
IPR056535NUP160, middle TPR domainDomain
D, M
IPR021717Nucleoporin Nup120/160Family
D, M
IPR056536NUP160, C-terminal TPR domainDomain
D, M
IPR056547NUP160, helical domainDomain
C, L
IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
C, L
IPR037363Sec13/Seh1 familyFamily
C, L
IPR020472PAC1/LIS1-like, WD-40 repeatRepeat
C, L
IPR001680WD40 repeatRepeat
C, L
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
B, K
IPR001680WD40 repeatRepeat
B, K
IPR019775WD40 repeat, conserved siteConserved Site
B, K
IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
B, K
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
CA [auth c],
FA [auth f]
IPR007758Nucleoporin, NSP1-like, C-terminalDomain
CA [auth c],
FA [auth f]
IPR026010Nucleoporin NSP1/NUP62Family
BA [auth b],
DA [auth d]
IPR037700Nucleoporin NUP88/NUP82Family
BA [auth b],
DA [auth d]
IPR019321Nucleoporin Nup88Family
AA [auth a],
EA [auth e]
IPR001680WD40 repeatRepeat
AA [auth a],
EA [auth e]
IPR039462Nucleoporin Nup159/Nup146, N-terminalDomain
AA [auth a],
EA [auth e]
IPR026054Nuclear pore complex proteinFamily
AA [auth a],
EA [auth e]
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
V, W, X, Y, Z
IPR036443Zinc finger, RanBP2-type superfamilyHomologous Superfamily
V, W, X, Y, Z
IPR022011Nup358/RanBP2 E3 ligase domainDomain
V, W, X, Y, Z
IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
V, W, X, Y, Z
IPR011993PH-like domain superfamilyHomologous Superfamily
V, W, X, Y, Z
IPR000156Ran binding domainDomain
V, W, X, Y, Z
IPR019734Tetratricopeptide repeatRepeat
V, W, X, Y, Z
IPR001876Zinc finger, RanBP2-typeDomain
V, W, X, Y, Z
IPR045255Ran binding protein RanBP1-likeFamily
IPR007231Nucleoporin interacting component Nup93/Nic96Family
S, T
IPR021827Nucleoporin Nup186/Nup192/Nup205Family
A, J
IPR011502Nucleoporin Nup85-likeFamily