SUPERFAMILY 1.75 HMM library and genome assignments server

Nucleoporin domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   7-bladed beta-propeller [ 50964] (14)
Superfamily:   Nucleoporin domain [ 117289]
Families:   Nucleoporin domain [ 117290] (2)


Superfamily statistics
Genomes (475) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,501 1,670 2
Proteins 1,491 1,667 2


Functional annotation
General category Processes_IC
Detailed category Transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)localization0.0010560.00000001854Least InformativeInherited

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) localization 0.00000001854 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.1828 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.1529 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1134 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.03511 Least Informative Inherited
Biological Process (BP) macromolecule localization 0.000000001712 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.0000001925 Moderately Informative Direct
Biological Process (BP) cellular localization 0.0000008036 Moderately Informative Direct
Biological Process (BP) gene expression 0.0001892 Moderately Informative Direct
Biological Process (BP) signal transduction 0.003957 Moderately Informative Inherited
Biological Process (BP) cytoplasmic transport 0 Informative Direct
Biological Process (BP) single-organism cellular localization 0.00000000009319 Informative Direct
Biological Process (BP) single-organism intracellular transport 0.00000003795 Informative Direct
Biological Process (BP) protein transport 0.000002158 Informative Direct
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.00002296 Informative Direct
Biological Process (BP) protein localization to organelle 0.00005975 Informative Direct
Biological Process (BP) nitrogen compound transport 0.007508 Informative Inherited
Biological Process (BP) protein import 0 Highly Informative Direct
Biological Process (BP) single-organism nuclear import 0.00000000000001071 Highly Informative Direct
Biological Process (BP) protein targeting to nucleus 0.000000000006305 Highly Informative Direct
Biological Process (BP) establishment of RNA localization 0.000000007816 Highly Informative Direct
Biological Process (BP) nucleus organization 0.0000001048 Highly Informative Direct
Biological Process (BP) nucleobase-containing compound transport 0.0001373 Highly Informative Direct
Biological Process (BP) nuclear export 0.587 Highly Informative Inherited
Molecular Function (MF) transporter activity 0.000784 Moderately Informative Direct
Cellular Component (CC) protein complex 0.00000172 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.00003692 Least Informative Direct
Cellular Component (CC) membrane 0.01679 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.03909 Least Informative Inherited
Cellular Component (CC) organelle envelope 0.000000000006462 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.0000000004886 Moderately Informative Direct
Cellular Component (CC) intrinsic component of membrane 0.0002671 Moderately Informative Direct
Cellular Component (CC) nuclear envelope 0.000000000000006018 Informative Direct
Cellular Component (CC) integral component of membrane 0.0001025 Informative Direct
Cellular Component (CC) pore complex 0 Highly Informative Direct

Document: GO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)mortality/aging0Least InformativeDirect
Mammalian Phenotype (MP)preweaning lethality0Moderately InformativeDirect
Mammalian Phenotype (MP)embryonic lethality0InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)developmental timing variant0Least InformativeDirect
Worm Phenotype (WP)larval lethal0Moderately InformativeDirect
Worm Phenotype (WP)sterile progeny0Moderately InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0.0000009952Least InformativeDirect
Biological processProtein transport0.000004339Moderately InformativeDirect
Biological processTranslocation9.345e-16Highly InformativeDirect
Biological processmRNA transport0.000000000000004603Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
DomainRepeat0.0000000000009584Least InformativeDirect
DomainWD repeat0InformativeDirect
Post-translational modificationPhosphoprotein0.0002652Least InformativeDirect
Post-translational modificationAcetylation0.0003737Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 2 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Nucleoporin domain domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 2 hidden Markov models representing the Nucleoporin domain superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · UniProtKB KeyWords (KW) · Internal database links ]