Tetratricopeptide-like repeats are found in a numerous and diverse proteins involved in such functions as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding.
This clan contains 149 families and the total number of domains in the clan is 1169594. The clan was built by DJ Studholme.
- Lamb JR, Tugendreich S, Hieter P; , Trends Biochem Sci 1995;20:257-259.: Tetratrico peptide repeat interactions: to TPR or not to TPR? PUBMED:7667876 EPMC:7667876
- Das AK, Cohen PW, Barford D; , EMBO J 1998;17:1192-1199.: The structure of the tetratricopeptide repeats of protein phosphatase 5: implications for TPR-mediated protein-protein interactions. PUBMED:9482716 EPMC:9482716
- Pallen MJ, Francis MS, Futterer K; , FEMS Microbiol Lett 2003;223:53-60.: Tetratricopeptide-like repeats in type-III-secretion chaperones and regulators. PUBMED:12799000 EPMC:12799000
- Rispal D, Henri J, van Tilbeurgh H, Graille M, Seraphin B;, RNA. 2011; [Epub ahead of print]: Structural and functional analysis of Nro1/Ett1: a protein involved in translation termination in S. cerevisiae and in O2-mediated gene control in S. pombe. PUBMED:21610214 EPMC:21610214
This clan contains the following 149 member families:Adaptin_N Alkyl_sulf_dimr ANAPC3 ANAPC5 ANAPC8 API5 Arm Arm_2 Arm_3 Atx10homo_assoc B56 BAF250_C BTAD CAS_CSE1 ChAPs CHIP_TPR_N CLASP_N Clathrin Clathrin-link Clathrin_H_link Clathrin_propel Cnd1 Cnd3 Coatomer_E Cohesin_HEAT Cohesin_load ComR_TPR COPI_C CPL CRM1_C Cse1 DHR-2 DNA_alkylation Drf_FH3 Drf_GBD DUF1822 DUF2019 DUF2225 DUF3385 DUF3458_C DUF3808 DUF3856 DUF4042 DUF924 EST1 EST1_DNA_bind FAT Fis1_TPR_C Fis1_TPR_N Foie-gras_1 GUN4_N HAT HEAT HEAT_2 HEAT_EZ HEAT_PBS HemY_N HrpB1_HrpK IBB IBN_N IFRD KAP Leuk-A4-hydro_C LRV LRV_FeS MA3 MIF4G MIF4G_like MIF4G_like_2 MMS19_C Mo25 MRP-S27 NARP1 Neurochondrin Nipped-B_C Nro1 NSF Paf67 ParcG PC_rep PHAT PI3Ka PknG_TPR PPP5 PPR PPR_1 PPR_2 PPR_3 PPR_long PPTA Proteasom_PSMB PUF Rab5-bind Rapsyn_N RIX1 RPM2 RPN7 Sel1 SHNi-TPR SNAP SPO22 SRP_TPR_like ST7 Suf SusD-like SusD-like_2 SusD-like_3 SusD_RagB SYCP2_ARLD TAF6_C TAL_effector TAtT Tcf25 TIP120 TOM20_plant TPR_1 TPR_10 TPR_11 TPR_12 TPR_14 TPR_15 TPR_16 TPR_17 TPR_18 TPR_19 TPR_2 TPR_20 TPR_21 TPR_3 TPR_4 TPR_5 TPR_6 TPR_7 TPR_8 TPR_9 TPR_MalT UNC45-central Upf2 V-ATPase_H_C V-ATPase_H_N Vac14_Fab1_bd Vitellogenin_N Vps39_1 W2 Wzy_C_2 Xpo1 YcaO_C YfiO Zmiz1_N
External database links
Below is a listing of the unique domain organisations or architectures from this clan. More...
The graphic that is shown by default represents the longest sequence with a given architecture. Each row contains the following information:
- the number of sequences which exhibit this architecture
a textual description of the architecture, e.g. Gla, EGF x 2, Trypsin.
This example describes an architecture with one
Gladomain, followed by two consecutive
EGFdomains, and finally a single
- a link to the page in the Pfam site showing information about the sequence that the graphic describes
- the UniProt description of the protein sequence
- the number of residues in the sequence
- the Pfam graphic itself.
Note that you can see the family page for a particular domain by
clicking on the graphic. You can also choose to see all sequences which
have a given architecture by clicking on the
in each row.
Finally, because some families can be found in a very large number of architectures, we load only the first fifty architectures by default. If you want to see more architectures, click the button at the bottom of the page to load the next set.
Loading domain graphics...
The table below shows the number of occurrences of each domain throughout the sequence database. More...
In brackets beside each number is the percentage of the total number of sequence hits for the clan that are represented by this domain. The rightmost column provides a link to the alignments tab for each domain. Finally, the last row in the table provides a link to the HTML representation of the alignment for the seed alignments for all members of this clan.
Please note: the clan alignment can be extremely large and the resulting HTML file is often too large to be rendered by web-browsers. Please consider downloading the alignment (by right-clicking the link) rather than viewing it in your browser.
|Pfam family||Num. domains||Alignment|
|PPR_2 (PF13041)||151677 (13.0%)||View|
|PPR (PF01535)||131732 (11.3%)||View|
|Sel1 (PF08238)||85370 (7.3%)||View|
|TPR_12 (PF13424)||82940 (7.1%)||View|
|TPR_16 (PF13432)||79504 (6.8%)||View|
|TPR_8 (PF13181)||68158 (5.8%)||View|
|Arm (PF00514)||43284 (3.7%)||View|
|TPR_19 (PF14559)||29159 (2.5%)||View|
|HEAT_2 (PF13646)||27564 (2.4%)||View|
|TPR_1 (PF00515)||25985 (2.2%)||View|
|PUF (PF00806)||25975 (2.2%)||View|
|TPR_11 (PF13414)||24455 (2.1%)||View|
|SusD_RagB (PF07980)||19694 (1.7%)||View|
|SusD-like_3 (PF14322)||19264 (1.6%)||View|
|TPR_10 (PF13374)||17854 (1.5%)||View|
|PPR_3 (PF13812)||16984 (1.5%)||View|
|Clathrin (PF00637)||14662 (1.3%)||View|
|TPR_2 (PF07719)||12537 (1.1%)||View|
|PPR_1 (PF12854)||12013 (1.0%)||View|
|Adaptin_N (PF01602)||11872 (1.0%)||View|
|IBN_N (PF03810)||10702 (0.9%)||View|
|TPR_6 (PF13174)||10241 (0.9%)||View|
|BTAD (PF03704)||9627 (0.8%)||View|
|PPTA (PF01239)||9165 (0.8%)||View|
|TPR_7 (PF13176)||8804 (0.8%)||View|
|MIF4G (PF02854)||8060 (0.7%)||View|
|TPR_MalT (PF17874)||6181 (0.5%)||View|
|MA3 (PF02847)||5665 (0.5%)||View|
|YfiO (PF13525)||5645 (0.5%)||View|
|CLASP_N (PF12348)||5513 (0.5%)||View|
|Xpo1 (PF08389)||5366 (0.5%)||View|
|HEAT (PF02985)||5298 (0.5%)||View|
|PPR_long (PF17177)||5201 (0.4%)||View|
|ANAPC3 (PF12895)||4909 (0.4%)||View|
|DNA_alkylation (PF08713)||4658 (0.4%)||View|
|HEAT_EZ (PF13513)||4498 (0.4%)||View|
|FAT (PF02259)||4235 (0.4%)||View|
|PC_rep (PF01851)||4138 (0.4%)||View|
|DHR-2 (PF06920)||3999 (0.3%)||View|
|PI3Ka (PF00613)||3975 (0.3%)||View|
|Clathrin_propel (PF01394)||3952 (0.3%)||View|
|Drf_GBD (PF06371)||3862 (0.3%)||View|
|W2 (PF02020)||3699 (0.3%)||View|
|B56 (PF01603)||3657 (0.3%)||View|
|SusD-like_2 (PF12771)||3571 (0.3%)||View|
|TPR_20 (PF14561)||3346 (0.3%)||View|
|Drf_FH3 (PF06367)||3208 (0.3%)||View|
|TPR_21 (PF09976)||3171 (0.3%)||View|
|SNAP (PF14938)||2956 (0.3%)||View|
|Arm_3 (PF16186)||2834 (0.2%)||View|
|IBB (PF01749)||2811 (0.2%)||View|
|DUF3458_C (PF17432)||2716 (0.2%)||View|
|EST1_DNA_bind (PF10373)||2462 (0.2%)||View|
|TPR_17 (PF13431)||2441 (0.2%)||View|
|RPN7 (PF10602)||2436 (0.2%)||View|
|DUF924 (PF06041)||2435 (0.2%)||View|
|Cse1 (PF08506)||2278 (0.2%)||View|
|Suf (PF05843)||2219 (0.2%)||View|
|DUF3808 (PF10300)||2032 (0.2%)||View|
|HemY_N (PF07219)||2020 (0.2%)||View|
|Cnd1 (PF12717)||2012 (0.2%)||View|
|Leuk-A4-hydro_C (PF09127)||1899 (0.2%)||View|
|Mo25 (PF08569)||1860 (0.2%)||View|
|TPR_9 (PF13371)||1748 (0.1%)||View|
|Clathrin_H_link (PF13838)||1741 (0.1%)||View|
|Vitellogenin_N (PF01347)||1731 (0.1%)||View|
|NARP1 (PF12569)||1720 (0.1%)||View|
|TPR_4 (PF07721)||1683 (0.1%)||View|
|CRM1_C (PF08767)||1666 (0.1%)||View|
|Vac14_Fab1_bd (PF12755)||1640 (0.1%)||View|
|EST1 (PF10374)||1638 (0.1%)||View|
|Alkyl_sulf_dimr (PF14863)||1592 (0.1%)||View|
|TPR_14 (PF13428)||1556 (0.1%)||View|
|HAT (PF02184)||1534 (0.1%)||View|
|COPI_C (PF06957)||1465 (0.1%)||View|
Please note: Clan alignments can be very large and can cause problems for some browsers. Read the note above before viewing.
This diagram shows the relationships between members of this clan. More...
Relationships between families in a clan are determined using HHsearch. Families are deemed to be closely related if their E-value is less than 10-3 and these relationships are shown with a solid line. Less closely related family pairs, with an E-value of between 10-3 and 10-1, are shown with a dashed line.
The E-value for each pair of closely or partially related families is shown next to the line linking the families. You can see the information regarding a Pfam family by clicking on the family box.
This tree shows the occurrence of the domains in this clan across different species. More...
For all of the domain matches in a full alignment we count the number of domains that are found on all sequences in the alignment. This total is shown in the purple box.
We also count the number of unique sequences on which each domain is found, which is shown in green. Note that a domain may appear multiple times on the same sequence, leading to the difference between these two numbers.
Finally, we group sequences from the same organism according to the NCBI code that is assigned by UniProt, allowing us to count the number of distinct sequences on which the domain is found. This value is shown in the pink boxes.
We use the NCBI species tree to group organisms according to their taxonomy and this forms the structure of the displayed tree. Note that in some cases the trees are too large (have too many nodes) to allow us to build an interactive tree, but in most cases you can still view the tree in a plain text, non-interactive representation.
You can use the tree controls to manipulate how the interactive tree is displayed:
- show/hide the summary boxes
- expand/collapse the tree or expand it to a given depth
- select a sub-tree or a set of species within the tree and view them graphically or as an alignment
- save a plain text representation of the tree
There are 265 interactions for this clan. More...
We determine these interactions using iPfam, which considers the interactions between residues in three-dimensional protein structures and maps those interactions back to Pfam families. You can find more information about the iPfam algorithm in journal article that accompanies the website.
For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the MSD group, to allow us to map Pfam domains onto UniProt three-dimensional structures. The table below shows the mapping between the Pfam families in this clan, the corresponding UniProt entries, and the region of the three-dimensional structures that are available for that sequence.
Loading structure mapping...