SUPERFAMILY 1.75 HMM library and genome assignments server

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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 (474) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,500 1,670 2
Proteins 1,490 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)localization0.0009330.00000001067Least InformativeDirect

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 0.00000001067 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.001407 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.1303 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1096 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.02804 Least Informative Inherited
Biological Process (BP) cellular localization 0.00000000001154 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.000000003686 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.0000003471 Moderately Informative Direct
Biological Process (BP) signal transduction 0.004184 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.06851 Moderately Informative Inherited
Biological Process (BP) cytoplasmic transport 0 Informative Direct
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.00002222 Informative Direct
Biological Process (BP) protein localization to organelle 0.00006062 Informative Direct
Biological Process (BP) protein transport 0.0001607 Informative Direct
Biological Process (BP) nitrogen compound transport 0.009076 Informative Inherited
Biological Process (BP) nuclear import 0 Highly Informative Direct
Biological Process (BP) protein localization to nucleus 0 Highly Informative Direct
Biological Process (BP) protein import 0 Highly Informative Direct
Biological Process (BP) protein targeting to nucleus 0 Highly Informative Direct
Biological Process (BP) establishment of RNA localization 0.00000001071 Highly Informative Direct
Biological Process (BP) nucleus organization 0.000001807 Highly Informative Direct
Biological Process (BP) nucleobase-containing compound transport 0.0001417 Highly Informative Direct
Biological Process (BP) nuclear export 0.00235 Highly Informative Inherited
Molecular Function (MF) transporter activity 0.0007777 Moderately Informative Direct
Cellular Component (CC) protein complex 0.000001941 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.00004539 Least Informative Direct
Cellular Component (CC) membrane 0.01607 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.05308 Least Informative Inherited
Cellular Component (CC) endomembrane system 0.0000000000003972 Moderately Informative Direct
Cellular Component (CC) organelle envelope 0.00000000001393 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.000000002412 Moderately Informative Direct
Cellular Component (CC) intrinsic to membrane 0.0002983 Moderately Informative Direct
Cellular Component (CC) nuclear envelope 0.0000000000004848 Informative Direct
Cellular Component (CC) integral to membrane 0.00000003843 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 processTransport0.0000009867Least InformativeDirect
Biological processProtein transport0.000004341Moderately InformativeDirect
Biological processTranslocation9.352e-16Highly InformativeDirect
Biological processmRNA transport0.000000000000004605Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
DomainRepeat0.0000000000009348Least InformativeDirect
DomainWD repeat0InformativeDirect
Post-translational modificationPhosphoprotein0.0002613Least InformativeDirect
Post-translational modificationAcetylation0.0003723Least 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 ]