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 (463) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,456 0 2
Proteins 1,447 0 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)localization0.0008711.077e-07Least 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 1.077e-07 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.007754 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.1344 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1983 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.05415 Least Informative Inherited
Biological Process (BP) cellular localization 1.092e-11 Moderately Informative Direct
Biological Process (BP) macromolecule localization 3.276e-09 Moderately Informative Direct
Biological Process (BP) organic substance transport 3.595e-07 Moderately Informative Direct
Biological Process (BP) signal transduction 0.004257 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.06785 Moderately Informative Inherited
Biological Process (BP) cytoplasmic transport 0 Informative Direct
Biological Process (BP) enzyme linked receptor protein signaling pathway 1.934e-05 Informative Direct
Biological Process (BP) protein localization to organelle 7.619e-05 Informative Direct
Biological Process (BP) protein transport 0.0001485 Informative Direct
Biological Process (BP) nitrogen compound transport 0.009216 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 1.133e-08 Highly Informative Direct
Biological Process (BP) nucleus organization 1.37e-06 Highly Informative Direct
Biological Process (BP) nucleobase-containing compound transport 0.0001462 Highly Informative Direct
Biological Process (BP) nuclear export 0.002493 Highly Informative Inherited
Molecular Function (MF) transporter activity 0.001507 Moderately Informative Inherited
Cellular Component (CC) protein complex 3.497e-05 Least Informative Direct
Cellular Component (CC) intracellular organelle part 7.804e-05 Least Informative Direct
Cellular Component (CC) membrane 0.03134 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.05174 Least Informative Inherited
Cellular Component (CC) endomembrane system 1.932e-12 Moderately Informative Direct
Cellular Component (CC) organelle envelope 3.211e-11 Moderately Informative Direct
Cellular Component (CC) nuclear part 1.011e-09 Moderately Informative Direct
Cellular Component (CC) intrinsic to membrane 0.0006054 Moderately Informative Direct
Cellular Component (CC) nuclear envelope 1.31e-12 Informative Direct
Cellular Component (CC) integral to membrane 1.065e-06 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 processTransport9.824e-07Least InformativeDirect
Biological processProtein transport4.374e-06Moderately InformativeDirect
Biological processTranslocation9.334e-16Highly InformativeDirect
Biological processmRNA transport4.6e-15Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
DomainRepeat9.387e-13Least InformativeDirect
DomainWD repeat0InformativeDirect
Post-translational modificationPhosphoprotein0.0002627Least InformativeDirect
Post-translational modificationAcetylation0.0003587Least 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 ]