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0  structures 290  species 0  interactions 1458  sequences 27  architectures

Family: CLTH (PF10607)

Summary: CTLH/CRA C-terminal to LisH motif domain

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CTLH/CRA C-terminal to LisH motif domain Provide feedback

RanBPM is a scaffolding protein and is important in regulating cellular function in both the immune system and the nervous system. This domain is at the C-terminus of the proteins and is the binding domain for the CRA motif (for CT11-RanBPM), which is comprised of approximately 100 amino acids at the C terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [5]. This region contains CTLH and CRA domains annotated by SMART; however, these may be a single domain, and it is refereed to as a C-terminal to LisH motif [6].

Literature references

  1. Nakamura M, Masuda H, Horii J, Kuma K, Yokoyama N, Ohba T, Nishitani H, Miyata T, Tanaka M, Nishimoto T; , J Cell Biol. 1998;143:1041-1052.: When overexpressed, a novel centrosomal protein, RanBPM, causes ectopic microtubule nucleation similar to gamma-tubulin. PUBMED:9817760 EPMC:9817760

  2. Wu Y, Sun X, Kaczmarek E, Dwyer KM, Bianchi E, Usheva A, Robson SC; , Biochem J. 2006;396:23-30.: RanBPM associates with CD39 and modulates ecto-nucleotidase activity. PUBMED:16478441 EPMC:16478441

  3. Denti S, Sirri A, Cheli A, Rogge L, Innamorati G, Putignano S, Fabbri M, Pardi R, Bianchi E; , J Biol Chem. 2004;279:13027-13034.: RanBPM is a phosphoprotein that associates with the plasma membrane and interacts with the integrin LFA-1. PUBMED:14722085 EPMC:14722085

  4. Murrin LC, Talbot JN; , J Neuroimmune Pharmacol. 2007;2:290-295.: RanBPM, a scaffolding protein in the immune and nervous systems. PUBMED:18040864 EPMC:18040864

  5. Menon RP, Gibson TJ, Pastore A; , J Mol Biol. 2004;343:43-53.: The C terminus of fragile X mental retardation protein interacts with the multi-domain Ran-binding protein in the microtubule-organising centre. PUBMED:15381419 EPMC:15381419

  6. Emes RD, Ponting CP;, Hum Mol Genet. 2001;10:2813-2820.: A new sequence motif linking lissencephaly, Treacher Collins and oral-facial-digital type 1 syndromes, microtubule dynamics and cell migration. PUBMED:11734546 EPMC:11734546


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR024964

RanBPM is a scaffolding protein and is important in regulating cellular function in both the immune system and the nervous system. The RanBPM protein contains multiple conserved domains that provide potential protein-protein interaction sites [PUBMED:22094242]. This entry represents a domain at the C terminus of RanBPM containing the CT11-RanBPM (CRA) motif. The CRA motif was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [PUBMED:15381419]. The region comprising this domain contains the CTLH and CRA domains annotated by SMART; however, these may be a single domain, and is referred to as a C-terminal to LisH motif [PUBMED:11734546].

Domain organisation

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Alignments

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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
(132)
Full
(1458)
Representative proteomes NCBI
(1417)
Meta
(5)
RP15
(321)
RP35
(541)
RP55
(796)
RP75
(1000)
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Format an alignment

  Seed
(132)
Full
(1458)
Representative proteomes NCBI
(1417)
Meta
(5)
RP15
(321)
RP35
(541)
RP55
(796)
RP75
(1000)
Alignment:
Format:
Order:
Sequence:
Gaps:
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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
(132)
Full
(1458)
Representative proteomes NCBI
(1417)
Meta
(5)
RP15
(321)
RP35
(541)
RP55
(796)
RP75
(1000)
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.

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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: Pfam-B_3765 (release 22.0), UPF0559
Previous IDs: RanBPM_CRA;
Type: Domain
Author: Coggill P, Bateman A
Number in seed: 132
Number in full: 1458
Average length of the domain: 169.80 aa
Average identity of full alignment: 20 %
Average coverage of the sequence by the domain: 40.24 %

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 23.0 23.0
Trusted cut-off 23.0 23.0
Noise cut-off 22.8 22.7
Model length: 145
Family (HMM) version: 4
Download: download the raw HMM for this family

Species distribution

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