Summary: Conserved oligomeric complex COG6
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Conserved oligomeric complex COG6 Provide feedback
COG6 is a component of the conserved oligomeric golgi complex, which is composed of eight different subunits and is required for normal golgi morphology and localisation.
Literature references
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Ungar D, Oka T, Brittle EE, Vasile E, Lupashin VV, Chatterton JE, Heuser JE, Krieger M, Waters MG; , J Cell Biol 2002;157:405-415.: Characterization of a mammalian Golgi-localized protein complex, COG, that is required for normal Golgi morphology and function. PUBMED:11980916 EPMC:11980916
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Whyte JR, Munro S; , Dev Cell 2001;1:527-537.: The Sec34/35 Golgi transport complex is related to the exocyst, defining a family of complexes involved in multiple steps of membrane traffic. PUBMED:11703943 EPMC:11703943
Internal database links
SCOOP: | Exo70 Sec34 |
Similarity to PfamA using HHSearch: | Vps52 |
This tab holds annotation information from the InterPro database.
InterPro entry IPR010490
COG6 is a component of the peripheral membrane COG complex that is involved in intra-Golgi protein trafficking. COG is located at the cis-Golgi, regulates tethering of retrograde intra-Golgi vesicles and possibly a number of other membrane trafficking events [PUBMED:12011112, PUBMED:12006647].
Gene Ontology
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
Cellular component | Golgi transport complex (GO:0017119) |
Biological process | intra-Golgi vesicle-mediated transport (GO:0006891) |
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 Vps51 (CL0295), which has the following description:
This clan includes an N-terminal domain from several vesicle transport proteins that are related to Vps51.
The clan contains the following 18 members:
COG2 COG5 COG6 Dor1 Dsl1_N Exo70 Exo84_C Sec15 Sec3_C Sec3_C_2 Sec5 Sec6 Sec8_exocyst Vps51 Vps52 Vps53_N Vps54_N Zw10Alignments
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 (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the UniProtKB sequence database, the NCBI sequence database, and our metagenomics sequence database. More...
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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 (103) |
Full (1495) |
Representative proteomes | UniProt (2662) |
NCBI (3043) |
Meta (3) |
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RP15 (273) |
RP35 (681) |
RP55 (1108) |
RP75 (1517) |
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PP/heatmap | 1 |
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key:
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not generated,
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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 (103) |
Full (1495) |
Representative proteomes | UniProt (2662) |
NCBI (3043) |
Meta (3) |
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RP15 (273) |
RP35 (681) |
RP55 (1108) |
RP75 (1517) |
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Raw Stockholm | |||||||||
Gzipped |
You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.
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
Seed source: | Pfam-B_10345 (release 8.0) |
Previous IDs: | none |
Type: | Family |
Sequence Ontology: | SO:0100021 |
Author: |
Wood V |
Number in seed: | 103 |
Number in full: | 1495 |
Average length of the domain: | 529.50 aa |
Average identity of full alignment: | 29 % |
Average coverage of the sequence by the domain: | 87.79 % |
HMM information
HMM build commands: |
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq
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Model details: |
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Model length: | 626 | ||||||||||||
Family (HMM) version: | 12 | ||||||||||||
Download: | download the raw HMM for this family |
Species distribution
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