signal recognition particle,

[gocentral]

The swiss prot kw mapping Signal recognition particle is to signal recognition particle, endoplasmic reticulum targeting but includes some gene producs which are signal recognition particle receptor complex

(one is the recptor and one is the recognition particle)

Reported by: ValWood

Original Ticket: "geneontology/annotation-issues/459":https://sourceforge.net/p/geneontology/annotation-issues/459

[gocentral]

• milestone: --> GOA
• assigned_to: nobody --> edimmer

Original comment by: mah11

[gocentral]

Logged In: YES user_id=1647919 Originator: NO

SP Keyword Description Protein of the signal recognition particle (SRP) which is a cytosolic ribonucleoprotein complex that induces elongation arrest of nascent presecretory and membrane proteins until the ribosome becomes associated with the rough endoplasmic reticulum. It consists of a 7S RNA and at least six polypeptide subunits. One of the SRP proteins (srp54) binds GTP and in association with 7S RNA and srp19 has GTPase activity. Gene ontology links GO:0005786; signal recognition particle, endoplasmic reticulum targeting.

Hierarchy Cellular component ⊃ Signal recognition particle
Molecular function ⊃ Ribonucleoprotein ⊃ Signal recognition particle

Hi Val...from the def above it seems the kw is meant to map to the signal recognition particle receptor complex would you think that too?

The GO def for 'signal recognition particle, endoplasmic reticulum targeting' is A ribonucleoprotein particle of 325 kDa composed of a 7S (300 nucleotide) RNA molecule and a complex of six different polypeptides. This binds both to the N-terminal signal peptide for proteins destined for the endoplasmic reticulum as they emerge from the large ribosomal subunit and also to the ribosome. This binding arrests further translation thereby preventing the proteins from being released into the cytosol. The SRP-ribosome complex then diffuses to the endoplasmic reticulum where it is bound to the signal recognition particle receptor, which allows resumption of protein synthesis and facilitates the passage of the growing polypeptide chain through the translocon. Through a process involving GTP hydrolysis, the SRP-SRP receptor complex dissociates and SRP returns to the cytosol. Of the six polypeptides of SRP the 54 kDa subunit (SRP54) is the central player. It contains an N-terminal GTPase domain and a C-terminal domain that binds directly to the signal peptide and the SRP RNA. quite long with synonyms : signal recognition particle (sensu Eukaryota) signal sequence receptor complex

ok..so are you saying that 'A ribonucleoprotein particle of 325 kDa composed of a 7S (300 nucleotide) RNA molecule and a complex of six different polypeptides' is a complex distinct from 'the signal recognition particle receptor'...so therefore I am interpreting you that only the particle and its component parts should be annotated this GO term and not to the signal recognition particle receptor complex. Sounds about right to me but can you indicate to me some examples where this has occurred so that I can e-mail UniProtKB..

Again this is a case where the mapping is ok...but kw assigment particularly in TrEMBL needs attention.

cheers

Evelyn

EMILY PLEASE MARK AS PENDING, UNTIL TREMBL FIX>>>or WE WE SUPPRESS

Original comment by: camon

[gocentral]

Logged In: YES user_id=516865 Originator: YES

O13950

see

http://www.genedb.org/genedb/FreeTextSearch?searchText=Full+Content+Search&q=O13950&org=pombe

and yes, i have annotated to SRP receptor complex...... I think this is what it should be,

However, some eg O94407 do map to this term correctly.

signal recognition particle (kw) can't map accurately to both

Original comment by: ValWood

[gocentral]

Logged In: YES user_id=1647919 Originator: NO

MESSAGE SENT to UNIPROTKB:

Thank you for your inquiry. The following has been submitted to the UniProt help desk as query 070917-819738. Please use this number to reference your query in any follow-up correspondence.

Name: Evelyn Camon E-mail: camon@ebi.ac.uk Institution: EBI, GOA Subject: SPKW: Signal recognition particle Message: Hi This is another query from the GO Consortium members... The swiss-prot kw 'Signal recognition particle' maps correctly (I think ) to the GO term 'signal recognition particle, endoplasmic reticulum targeting' however sometimes in UniProtKB the kw has been annotated incorrectly to signal recognition particle receptor complex components. So 'A ribonucleoprotein particle of 325 kDa composed of a 7S (300 nucleotide) RNA molecule and a complex of six different polypeptides' is a complex, distinct from 'the signal recognition particle receptor'. example incorrect: O13950 example correct:O94407 see GO SF item: https://sourceforge.net/tracker/?func=detail&atid=605890&aid=1790235&group\_id=36855 cheers, Evelyn

Original comment by: camon

[gocentral]

Logged In: YES user_id=463625 Originator: NO

Message from UniProtKB (Marc Feuermann)

Out of 189 entries with the "Signal recognition particle" KW, 154 are indeed SRP proteins. 35 correspond to SRP receptors and I removed the KW from these entries.

ev

Original comment by: ecamon

[gocentral]

• status: open --> pending

Original comment by: edimmer

[gocentral]

Logged In: YES user_id=1312539 Originator: NO

This Tracker item was closed automatically by the system. It was previously set to a Pending status, and the original submitter did not respond within 90 days (the time period specified by the administrator of this Tracker).

Original comment by: sf-robot

[gocentral]

• status: pending --> closed

Original comment by: sf-robot

[gocentral]

• status: closed --> pending

Original comment by: mah11

[gocentral]

Logged In: YES user_id=1312539 Originator: NO

This Tracker item was closed automatically by the system. It was previously set to a Pending status, and the original submitter did not respond within 90 days (the time period specified by the administrator of this Tracker).

Original comment by: sf-robot

[gocentral]

• status: pending --> closed

Original comment by: sf-robot