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Conserved domains on  [gi|6807716|emb|CAB70859|]
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hypothetical protein [Homo sapiens]

Protein Classification

nucleoporin complex subunit 54 family protein( domain architecture ID 10620655)

nucleoporin complex subunit 54 family protein is part of the nucleoporin complex, a large proteinaceous assembly that acts as a portal for exchanging macromolecules between the nucleus and cytoplasm

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Nup54 pfam13874
Nucleoporin complex subunit 54; This is the human Nup54 subunit of the nucleoporin complex, ...
 1-102 7.66e-37

Nucleoporin complex subunit 54; This is the human Nup54 subunit of the nucleoporin complex, equivalent to Nup57 of yeast. Nup54, Nup58 and Nup62 all have similar affinities for importin-beta. It seems likely that they are the only FG-repeat nucleoporins of the central channel, and as such they would form a zone of equal affinity spanning the central channel. The diffusion of importin-beta import complexes through the central channel may be a stochastic process as the affinities are similar, whereas movement from cytoplasmic fibrils to the central channel and from the central channel to the nuclear basket would be facilitated by the subtle differences in affinity between them.


:

Pssm-ID: 464011 [Multi-domain]  Cd Length: 139  Bit Score: 123.08  E-value: 7.66e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6807716      1 MVGFKELLRRLKVQDQMTKQHQTRLDIISEDISELQ-KNQTTSVAKIAQYKRKLMDLSHRTLQVLIKQEIQRKSGYAIQA 79
Cdd:pfam13874  28 VIGFEDLKKRLKLQEEEVAAHRERLHEINEKLTELQqKHDLETSVRIEEAKRRHTELSHRLLRLARKLEVLRNRGYALSP 107

                          90       100
                  ....*....|....*....|...
gi 6807716     80 DEEQLRVQLDTIQGELNAPTQFK 102
Cdd:pfam13874 108 EEEQLRKRLETLLKQLNDPAQFK 130
 
Name Accession Description Interval E-value
Nup54 pfam13874
Nucleoporin complex subunit 54; This is the human Nup54 subunit of the nucleoporin complex, ...
 1-102 7.66e-37

Nucleoporin complex subunit 54; This is the human Nup54 subunit of the nucleoporin complex, equivalent to Nup57 of yeast. Nup54, Nup58 and Nup62 all have similar affinities for importin-beta. It seems likely that they are the only FG-repeat nucleoporins of the central channel, and as such they would form a zone of equal affinity spanning the central channel. The diffusion of importin-beta import complexes through the central channel may be a stochastic process as the affinities are similar, whereas movement from cytoplasmic fibrils to the central channel and from the central channel to the nuclear basket would be facilitated by the subtle differences in affinity between them.


Pssm-ID: 464011 [Multi-domain]  Cd Length: 139  Bit Score: 123.08  E-value: 7.66e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6807716      1 MVGFKELLRRLKVQDQMTKQHQTRLDIISEDISELQ-KNQTTSVAKIAQYKRKLMDLSHRTLQVLIKQEIQRKSGYAIQA 79
Cdd:pfam13874  28 VIGFEDLKKRLKLQEEEVAAHRERLHEINEKLTELQqKHDLETSVRIEEAKRRHTELSHRLLRLARKLEVLRNRGYALSP 107

                          90       100
                  ....*....|....*....|...
gi 6807716     80 DEEQLRVQLDTIQGELNAPTQFK 102
Cdd:pfam13874 108 EEEQLRKRLETLLKQLNDPAQFK 130
 
Name Accession Description Interval E-value
Nup54 pfam13874
Nucleoporin complex subunit 54; This is the human Nup54 subunit of the nucleoporin complex, ...
 1-102 7.66e-37

Nucleoporin complex subunit 54; This is the human Nup54 subunit of the nucleoporin complex, equivalent to Nup57 of yeast. Nup54, Nup58 and Nup62 all have similar affinities for importin-beta. It seems likely that they are the only FG-repeat nucleoporins of the central channel, and as such they would form a zone of equal affinity spanning the central channel. The diffusion of importin-beta import complexes through the central channel may be a stochastic process as the affinities are similar, whereas movement from cytoplasmic fibrils to the central channel and from the central channel to the nuclear basket would be facilitated by the subtle differences in affinity between them.


Pssm-ID: 464011 [Multi-domain]  Cd Length: 139  Bit Score: 123.08  E-value: 7.66e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6807716      1 MVGFKELLRRLKVQDQMTKQHQTRLDIISEDISELQ-KNQTTSVAKIAQYKRKLMDLSHRTLQVLIKQEIQRKSGYAIQA 79
Cdd:pfam13874  28 VIGFEDLKKRLKLQEEEVAAHRERLHEINEKLTELQqKHDLETSVRIEEAKRRHTELSHRLLRLARKLEVLRNRGYALSP 107

                          90       100
                  ....*....|....*....|...
gi 6807716     80 DEEQLRVQLDTIQGELNAPTQFK 102
Cdd:pfam13874 108 EEEQLRKRLETLLKQLNDPAQFK 130
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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