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0  structures 246  species 0  interactions 426  sequences 20  architectures

Family: AKAP7_NLS (PF10469)

Summary: AKAP7 2'5' RNA ligase-like domain

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This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

AKAP7 2'5' RNA ligase-like domain Provide feedback

AKAP7_NLS is the N-terminal domain of the cyclic AMP-dependent protein kinase A, PKA, anchor protein AKAP7. This protein anchors PKA for its role in regulating PKA-mediated gene transcription in both somatic cells and oocytes [1]. AKAP7_NLS carries the nuclear localisation signal (NLS) KKRKK, that indicates the cellular destiny of this anchor protein [2]. Binding to the regulatory subunits RI and RII of PKA is mediated via the family AKAP7_RIRII_bdg. at the C-terminus. This family represents a region that contains two 2'5' RNA ligase like domains PF02834. Presumably this domain carried out some as yet unknown enzymatic function.

Literature references

  1. Brown RL, August SL, Williams CJ, Moss SB; , Biochem Biophys Res Commun. 2003;306:394-401.: AKAP7gamma is a nuclear RI-binding AKAP. PUBMED:12804576 EPMC:12804576

  2. Hundsrucker C, Krause G, Beyermann M, Prinz A, Zimmermann B, Diekmann O, Lorenz D, Stefan E, Nedvetsky P, Dathe M, Christian F, McSorley T, Krause E, McConnachie G, Herberg FW, Scott JD, Rosenthal W, Klussmann E; , Biochem J. 2006;396:297-306.: High-affinity AKAP7delta-protein kinase A interaction yields novel protein kinase A-anchoring disruptor peptides. PUBMED:16483255 EPMC:16483255


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR019510

This entry represents the nuclear localisation signal-containing domain found in the cyclic AMP-dependent protein kinase A (PKA) anchor protein, AKAP7. This protein anchors PKA for its role in regulating PKA-mediated gene transcription in both somatic cells and oocytes [PUBMED:12804576]. This domain carries the nuclear localisation signal (NLS) KKRKK, that indicates the cellular destiny of this anchor protein [PUBMED:16483255].

The domain is also found in a number of other proteins, such as activating signal cointegrator 1 complex subunit 1 and leukocyte receptor cluster member 9.

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

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Pfam Clan

This family is a member of clan 2H (CL0247), which has the following description:

This clan includes a number of phosphoesterases that contain an internal duplication.

The clan contains the following 9 members:

2_5_RNA_ligase2 2H-phosphodiest AKAP7_NLS CNPase Corona_NS2A CPDase DUF1045 HVSL LigT_PEase

Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the NCBI sequence database, and our metagenomics sequence database. More...

View options

We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(50)
Full
(426)
Representative proteomes NCBI
(884)
Meta
(46)
RP15
(94)
RP35
(145)
RP55
(212)
RP75
(280)
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(50)
Full
(426)
Representative proteomes NCBI
(884)
Meta
(46)
RP15
(94)
RP35
(145)
RP55
(212)
RP75
(280)
Alignment:
Format:
Order:
Sequence:
Gaps:
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Download options

We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(50)
Full
(426)
Representative proteomes NCBI
(884)
Meta
(46)
RP15
(94)
RP35
(145)
RP55
(212)
RP75
(280)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download   Download  

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

External links

MyHits provides a collection of tools to handle multiple sequence alignments. For example, one can refine a seed alignment (sequence addition or removal, re-alignment or manual edition) and then search databases for remote homologs using HMMER3.

Pfam alignments:

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: TreeFam_TF105406
Previous IDs: none
Type: Domain
Author: Buljan M, Coggill P
Number in seed: 50
Number in full: 426
Average length of the domain: 205.50 aa
Average identity of full alignment: 22 %
Average coverage of the sequence by the domain: 57.73 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 26.2 26.2
Trusted cut-off 26.2 26.2
Noise cut-off 26.1 26.1
Model length: 209
Family (HMM) version: 4
Download: download the raw HMM for this family

Species distribution

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