Summary: Gamma tubulin complex component C-terminal
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Gamma tubulin complex component C-terminal Provide feedback
This is the C-terminal domain found in components of the gamma-tubulin complex proteins (GCPs). Family members include spindle pole body (SBP) components such as Spc97 and Spc98 which function as the microtubule-organizing center in yeast [1]. Furthermore, family members such as human GCP4 (Gamma-tubulin complex component 4) have been structurally elucidated Q9UGJ1 . Structure-based sequence analysis revealed the existence of an exposed surface area conserved in all human GCPs and in GCP4 orthologs. This area is located in the C-terminal domain of GCP4, which was confirmed in vitro to bind directly to gamma-tubulin. Sequence alignment of human GCPs based on the GCP4 structure helped delineate conserved regions in the N- and C-terminal domains [2].
Literature references
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Gunawardane RN, Martin OC, Cao K, Zhang L, Dej K, Iwamatsu A, Zheng Y; , J Cell Biol. 2000;151:1513-1524.: Characterization and reconstitution of Drosophila gamma-tubulin ring complex subunits. PUBMED:11134079 EPMC:11134079
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Guillet V, Knibiehler M, Gregory-Pauron L, Remy MH, Chemin C, Raynaud-Messina B, Bon C, Kollman JM, Agard DA, Merdes A, Mourey L;, Nat Struct Mol Biol. 2011;18:915-919.: Crystal structure of gamma-tubulin complex protein GCP4 provides insight into microtubule nucleation. PUBMED:21725292 EPMC:21725292
This tab holds annotation information from the InterPro database.
InterPro entry IPR040457
This is the C-terminal domain found in components of the gamma-tubulin complex proteins (GCPs). Family members include spindle pole body (SBP) components such as Spc97 and Spc98 which function as the microtubule-organizing centre in yeast [ PUBMED:11134079 ]. Furthermore, family members such as human GCP4 (gamma-tubulin complex component 4) have been structurally elucidated ( SWISSPROT ). Structure-based sequence analysis revealed the existence of an exposed surface area conserved in all human GCPs and in GCP4 orthologues. This area is located in the C-terminal domain of GCP4, which was confirmed in vitro to bind directly to gamma-tubulin. Sequence alignment of human GCPs based on the GCP4 structure helped delineate conserved regions in the N- and C-terminal domains [ PUBMED:21725292 ].
Gene Ontology
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
Molecular function | gamma-tubulin binding (GO:0043015) |
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 GCP (CL0540), which has the following description:
This superfamily carries families of proteins all derived via gene-duplication events that act together in the gamma-tubulin complex. This complex is required for microtubule nucleation at the centrosome.
The clan contains the following 3 members:
GCP5-Mod21 GCP_C_terminal GCP_N_terminalAlignments
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 and the UniProtKB 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 (229) |
Full (8843) |
Representative proteomes | UniProt (14780) |
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RP15 (1641) |
RP35 (3821) |
RP55 (6699) |
RP75 (9100) |
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PP/heatmap | 1 |
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key:
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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 (229) |
Full (8843) |
Representative proteomes | UniProt (14780) |
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RP15 (1641) |
RP35 (3821) |
RP55 (6699) |
RP75 (9100) |
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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_3531 (release 7.3) |
Previous IDs: | Spc97_Spc98; |
Type: | Domain |
Sequence Ontology: | SO:0000417 |
Author: |
Bateman A |
Number in seed: | 229 |
Number in full: | 8843 |
Average length of the domain: | 317.2 aa |
Average identity of full alignment: | 18 % |
Average coverage of the sequence by the domain: | 36.15 % |
HMM information
HMM build commands: |
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
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Model details: |
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Model length: | 309 | ||||||||||||
Family (HMM) version: | 16 | ||||||||||||
Download: | download the raw HMM for this family |
Species distribution
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Structures
For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the GCP_C_terminal domain has been found. There are 59 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.
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AlphaFold Structure Predictions
The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.